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![]() | Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples |
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![]() | The effects of the RNA editing to the stability of the RNA structures |
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Editing gene: LIN28A (CAeditome ID:79727) |
Gene summary for LIN28A |
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Gene information | Gene symbol | LIN28A | Gene ID | 79727 |
Gene name | lin-28 homolog A | |
Synonyms | CSDD1|LIN-28|LIN28|ZCCHC1|lin-28A | |
Cytomap | 1p36.11 | |
Type of gene | protein-coding | |
Description | protein lin-28 homolog ARNA-binding protein LIN-28zinc finger CCHC domain-containing protein 1zinc finger, CCHC domain containing 1 | |
Modification date | 20210518 | |
UniProtAcc | Q9H9Z2 | |
Context |
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Gene | GO ID | GO term | PubMed ID |
LIN28A | GO:0003723 | Protein lin-28 homolog A | 18951094 |
LIN28A | GO:0003723 | Protein lin-28 homolog A | 19703396 |
LIN28A | GO:1905538 | Protein lin-28 homolog A | 21247876 |
LIN28A | GO:0000932 | Protein lin-28 homolog A | 17617744 |
LIN28A | GO:0005634 | Protein lin-28 homolog A | 17617744 |
LIN28A | GO:0005730 | Protein lin-28 homolog A | 0000052 |
LIN28A | GO:0005737 | Protein lin-28 homolog A | 18604195 |
LIN28A | GO:0005737 | Protein lin-28 homolog A | 20014101 |
LIN28A | GO:0005829 | Protein lin-28 homolog A | 0000052 |
LIN28A | GO:0010494 | Protein lin-28 homolog A | 17617744 |
LIN28A | GO:0005844 | Protein lin-28 homolog A | 21247876 |
LIN28A | GO:1990904 | Protein lin-28 homolog A | 21247876 |
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RNA A-to-I events for LIN28A |
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CAediting_28878(26428615, +), CAediting_28879(26428620, +), CAediting_28880(26428640, +), CAediting_28881(26428641, +), CAediting_28882(26428645, +), CAediting_28883(26428718, +), CAediting_28884(26428785, +), CAediting_28885(26428800, +), CAediting_28886(26428812, +), CAediting_28887(26428818, +), CAediting_28888(26428821, +), CAediting_28889(26428911, +), CAediting_28890(26428912, +), CAediting_28891(26428928, +), CAediting_28892(26428950, +), CAediting_28893(26428964, +), CAediting_28894(26428965, +), CAediting_28895(26428966, +), CAediting_28896(26428978, +), CAediting_28897(26428989, +), CAediting_28898(26429000, +), CAediting_28899(26429005, +), CAediting_28900(26429011, +), CAediting_28901(26429012, +), CAediting_28902(26429015, +), CAediting_28903(26429045, +), CAediting_28904(26429072, +), CAediting_28905(26429078, +), CAediting_28906(26429094, +), CAediting_28907(26429149, +), |
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RNA editing positional annotations for LIN28A using Annovar |
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CAeditome ID | Position | Variant type | ENST | NTchange | AAchange | SIFT_score | Polyphen2_HVAR_score | PROVEAN_pred |
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CAeditome ID | Position | Variant type |
CAediting_28878 | chr1_26428615_+ | UTR3 |
CAediting_28879 | chr1_26428620_+ | UTR3 |
CAediting_28880 | chr1_26428640_+ | UTR3 |
CAediting_28881 | chr1_26428641_+ | UTR3 |
CAediting_28882 | chr1_26428645_+ | UTR3 |
CAediting_28883 | chr1_26428718_+ | UTR3 |
CAediting_28884 | chr1_26428785_+ | UTR3 |
CAediting_28885 | chr1_26428800_+ | UTR3 |
CAediting_28886 | chr1_26428812_+ | UTR3 |
CAediting_28887 | chr1_26428818_+ | UTR3 |
CAediting_28888 | chr1_26428821_+ | UTR3 |
CAediting_28889 | chr1_26428911_+ | UTR3 |
CAediting_28890 | chr1_26428912_+ | UTR3 |
CAediting_28891 | chr1_26428928_+ | UTR3 |
CAediting_28892 | chr1_26428950_+ | UTR3 |
CAediting_28893 | chr1_26428964_+ | UTR3 |
CAediting_28894 | chr1_26428965_+ | UTR3 |
CAediting_28895 | chr1_26428966_+ | UTR3 |
CAediting_28896 | chr1_26428978_+ | UTR3 |
CAediting_28897 | chr1_26428989_+ | UTR3 |
CAediting_28898 | chr1_26429000_+ | UTR3 |
CAediting_28899 | chr1_26429005_+ | UTR3 |
CAediting_28900 | chr1_26429011_+ | UTR3 |
CAediting_28901 | chr1_26429012_+ | UTR3 |
CAediting_28902 | chr1_26429015_+ | UTR3 |
CAediting_28903 | chr1_26429045_+ | UTR3 |
CAediting_28904 | chr1_26429072_+ | UTR3 |
CAediting_28905 | chr1_26429078_+ | UTR3 |
CAediting_28906 | chr1_26429094_+ | splicing |
CAediting_28907 | chr1_26429149_+ | UTR3 |
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CAeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
CAediting_28878 | chr1_26428615_+ | SINE | Alu | AluSx1 |
CAediting_28879 | chr1_26428620_+ | SINE | Alu | AluSx1 |
CAediting_28880 | chr1_26428640_+ | SINE | Alu | AluSx1 |
CAediting_28881 | chr1_26428641_+ | SINE | Alu | AluSx1 |
CAediting_28882 | chr1_26428645_+ | SINE | Alu | AluSx1 |
CAediting_28883 | chr1_26428718_+ | SINE | Alu | AluSx1 |
CAediting_28884 | chr1_26428785_+ | SINE | Alu | AluSx1 |
CAediting_28885 | chr1_26428800_+ | SINE | Alu | AluSx1 |
CAediting_28886 | chr1_26428812_+ | SINE | Alu | AluSx1 |
CAediting_28887 | chr1_26428818_+ | SINE | Alu | AluSx1 |
CAediting_28888 | chr1_26428821_+ | SINE | Alu | AluSx1 |
CAediting_28889 | chr1_26428911_+ | SINE | Alu | AluSc |
CAediting_28890 | chr1_26428912_+ | SINE | Alu | AluSc |
CAediting_28891 | chr1_26428928_+ | SINE | Alu | AluSc |
CAediting_28892 | chr1_26428950_+ | SINE | Alu | AluSc |
CAediting_28893 | chr1_26428964_+ | SINE | Alu | AluSc |
CAediting_28894 | chr1_26428965_+ | SINE | Alu | AluSc |
CAediting_28895 | chr1_26428966_+ | SINE | Alu | AluSc |
CAediting_28896 | chr1_26428978_+ | SINE | Alu | AluSc |
CAediting_28897 | chr1_26428989_+ | SINE | Alu | AluSc |
CAediting_28898 | chr1_26429000_+ | SINE | Alu | AluSc |
CAediting_28899 | chr1_26429005_+ | SINE | Alu | AluSc |
CAediting_28900 | chr1_26429011_+ | SINE | Alu | AluSc |
CAediting_28901 | chr1_26429012_+ | SINE | Alu | AluSc |
CAediting_28902 | chr1_26429015_+ | SINE | Alu | AluSc |
CAediting_28903 | chr1_26429045_+ | SINE | Alu | AluSc |
CAediting_28904 | chr1_26429072_+ | SINE | Alu | AluSc |
CAediting_28905 | chr1_26429078_+ | SINE | Alu | AluSc |
CAediting_28906 | chr1_26429094_+ | SINE | Alu | AluSc |
CAediting_28907 | chr1_26429149_+ | SINE | Alu | AluSc |
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RNA A-to-I editing events in the alternative splicing sites for LIN28A |
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AStype | CAeditomID | Editing position | AS position | AS direction | Exonic location | Wildtype sequence | Wildtype splicing strength | RNA edited sequence | RNA edited splicing strength |
IR | CAediting_28905 | chr1_26429078_+ | 26429075:26429097 | 3SS | 0+17i | GGAATCGCTTGAACCCGAGAGGC | -14.45 | GGAGTCGCTTGAACCCGAGAGGC | -14.75 |
IR | CAediting_28906 | chr1_26429094_+ | 26429075:26429097 | 3SS | 0+1i | GGAATCGCTTGAACCCGAGAGGC | -14.45 | GGAATCGCTTGAACCCGAGGGGC | -5.7 |
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Differntial gene expression between RNA A-to-I edited versus non-edited samples for LIN28A |
![]() * The grey color means N/A. |
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TGCT.CAediting_28886.ENSG00000131914.LIN28A.png ![]() |
TGCT.CAediting_28887.ENSG00000131914.LIN28A.png ![]() |
TGCT.CAediting_28893.ENSG00000131914.LIN28A.png ![]() |
TGCT.CAediting_28894.ENSG00000131914.LIN28A.png ![]() |
TGCT.CAediting_28903.ENSG00000131914.LIN28A.png ![]() |
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Protein coding region RNA A-to-I editings for LIN28A |
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The effects of the RNA editing to the miRNA binding sites for LIN28A |
**If you are searching a miRNA gene with RNA editing events in its seed regions, please see the search pages of miRNA targets to discover the effects of this RNA editing event to miRNA regulations. For more information, please check the files in the Download page. |
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CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
CAediting_28907 | chr1_26429149_+ | ENSG00000131914.9 | ENST00000254231 | hsa-miR-874-3p | 26429145 | 26429152 | 8mer-1a | 26429131 | 26429152 | 148.00 | -20.60 |
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CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
CAediting_28907 | chr1_26429149_+ | ENSG00000131914.9 | ENST00000254231 | hsa-miR-3686 | 26429142 | 26429148 | 7mer-m8 | 26429128 | 26429149 | 140 | -8.32 |
CAediting_28907 | chr1_26429149_+ | ENSG00000131914.9 | ENST00000254231 | hsa-miR-5691 | 26429145 | 26429152 | 8mer-1a | 26429131 | 26429152 | 143 | -17.38 |
CAediting_28907 | chr1_26429149_+ | ENSG00000131914.9 | ENST00000254231 | hsa-miR-6805-3p | 26429145 | 26429152 | 8mer-1a | 26429130 | 26429152 | 145 | -17.19 |
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CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
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CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
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CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
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CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
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CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
CAediting_748296 | chr10_51299626_+ | ENSG00000131914.9 | ENST00000254231 | hsa-miR-605-3p | 26428366 | 26428372 | 7mer-m8 | 26428350 | 26428373 | 148 | -18.91 |
CAediting_980496 | chr14_31014685_- | ENSG00000131914.9 | ENST00000254231 | hsa-miR-624-3p | 26427737 | 26427743 | 7mer-1a | 26427722 | 26427743 | 141 | -19.46 |
CAediting_1229414 | chr17_67471546_+ | ENSG00000131914.9 | ENST00000254231 | hsa-miR-548aa | 26428131 | 26428137 | 7mer-m8 | 26428112 | 26428138 | 169 | -19.44 |
CAediting_1229415 | chr17_67471547_+ | ENSG00000131914.9 | ENST00000254231 | hsa-miR-548aa | 26427387 | 26427393 | 7mer-m8 | 26427371 | 26427394 | 154 | -11.9 |
CAediting_524911 | chr7_5495852_- | ENSG00000131914.9 | ENST00000254231 | hsa-miR-589-3p | 26426644 | 26426650 | 7mer-m8 | 26426627 | 26426651 | 147 | -18.59 |
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CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
CAediting_573000 | chr7_92204081_- | ENSG00000131914.9 | ENST00000254231 | hsa-miR-1285-5p | 26427937 | 26427943 | 7mer-m8 | 26427924 | 26427944 | 145 | -16.3 |
CAediting_573001 | chr7_92204086_- | ENSG00000131914.9 | ENST00000254231 | hsa-miR-1285-5p | 26427937 | 26427943 | 7mer-m8 | 26427924 | 26427944 | 145 | -16.3 |
CAediting_1306323 | chr19_13836462_- | ENSG00000131914.9 | ENST00000254231 | hsa-miR-27a-3p | 26427935 | 26427940 | 6mer | 26427921 | 26427941 | 140 | -16.38 |
CAediting_1368054 | chr19_46709310_- | ENSG00000131914.9 | ENST00000254231 | hsa-miR-320e | 26426739 | 26426745 | 7mer-m8 | 26426729 | 26426746 | 141 | -14.1 |
CAediting_688081 | chr9_63819627_+ | ENSG00000131914.9 | ENST00000254231 | hsa-miR-4477b | 26427790 | 26427796 | 7mer-m8 | 26427774 | 26427797 | 144 | -9.82 |
CAediting_688081 | chr9_63819627_+ | ENSG00000131914.9 | ENST00000254231 | hsa-miR-4477b | 26427167 | 26427173 | 7mer-m8 | 26427153 | 26427174 | 142 | -7.8 |
CAediting_1054808 | chr15_66496985_- | ENSG00000131914.9 | ENST00000254231 | hsa-miR-4512 | 26427215 | 26427221 | 7mer-m8 | 26427201 | 26427222 | 143 | -12.76 |
CAediting_1524209 | chrX_134546392_- | ENSG00000131914.9 | ENST00000254231 | hsa-miR-503-5p | 26427016 | 26427021 | 6mer | 26426998 | 26427022 | 140 | -26.75 |
CAediting_748296 | chr10_51299626_+ | ENSG00000131914.9 | ENST00000254231 | hsa-miR-605-3p | 26427482 | 26427488 | 7mer-m8 | 26427469 | 26427489 | 145 | -13.12 |
CAediting_468389 | chr6_31355314_- | ENSG00000131914.9 | ENST00000254231 | hsa-miR-6891-5p | 26429216 | 26429223 | 8mer-1a | 26429205 | 26429223 | 140 | -16.61 |
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The effects of the RNA editing to the stability of the RNA structures for LIN28A |
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ENST | ENST type | RNA structure without RNA A-to-I editing. | RNA structure with RNA A-to-I editing. |
ENST00000254231.4 | protein_coding | ![]() | ![]() |
ENST00000326279.9 | protein_coding | ![]() | ![]() |
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CAeditom_ID | ENST | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
CAediting_28907 | ENST00000254231.4 | chr1_26429149_+ | -1162.50 | -1162.50 | -1162.50 |
CAediting_28878 | ENST00000326279.9 | chr1_26428615_+ | -1589.40 | -1589.80 | -1592.40 |
CAediting_28879 | ENST00000326279.9 | chr1_26428620_+ | -1589.00 | -1589.80 | -1592.40 |
CAediting_28880 | ENST00000326279.9 | chr1_26428640_+ | -1589.50 | -1589.80 | -1592.40 |
CAediting_28881 | ENST00000326279.9 | chr1_26428641_+ | -1589.50 | -1589.80 | -1592.40 |
CAediting_28882 | ENST00000326279.9 | chr1_26428645_+ | -1589.20 | -1589.80 | -1592.40 |
CAediting_28883 | ENST00000326279.9 | chr1_26428718_+ | -1589.50 | -1589.80 | -1592.40 |
CAediting_28884 | ENST00000326279.9 | chr1_26428785_+ | -1595.20 | -1589.80 | -1592.40 |
CAediting_28885 | ENST00000326279.9 | chr1_26428800_+ | -1589.50 | -1589.80 | -1592.40 |
CAediting_28886 | ENST00000326279.9 | chr1_26428812_+ | -1589.80 | -1589.80 | -1592.40 |
CAediting_28887 | ENST00000326279.9 | chr1_26428818_+ | -1594.00 | -1589.80 | -1592.40 |
CAediting_28888 | ENST00000326279.9 | chr1_26428821_+ | -1588.90 | -1589.80 | -1592.40 |
CAediting_28889 | ENST00000326279.9 | chr1_26428911_+ | -1589.90 | -1589.80 | -1592.40 |
CAediting_28890 | ENST00000326279.9 | chr1_26428912_+ | -1589.80 | -1589.80 | -1592.40 |
CAediting_28891 | ENST00000326279.9 | chr1_26428928_+ | -1589.70 | -1589.80 | -1592.40 |
CAediting_28892 | ENST00000326279.9 | chr1_26428950_+ | -1589.80 | -1589.80 | -1592.40 |
CAediting_28893 | ENST00000326279.9 | chr1_26428964_+ | -1590.70 | -1589.80 | -1592.40 |
CAediting_28894 | ENST00000326279.9 | chr1_26428965_+ | -1595.00 | -1589.80 | -1592.40 |
CAediting_28895 | ENST00000326279.9 | chr1_26428966_+ | -1590.10 | -1589.80 | -1592.40 |
CAediting_28896 | ENST00000326279.9 | chr1_26428978_+ | -1589.50 | -1589.80 | -1592.40 |
CAediting_28897 | ENST00000326279.9 | chr1_26428989_+ | -1589.80 | -1589.80 | -1592.40 |
CAediting_28898 | ENST00000326279.9 | chr1_26429000_+ | -1589.80 | -1589.80 | -1592.40 |
CAediting_28899 | ENST00000326279.9 | chr1_26429005_+ | -1589.90 | -1589.80 | -1592.40 |
CAediting_28900 | ENST00000326279.9 | chr1_26429011_+ | -1589.90 | -1589.80 | -1592.40 |
CAediting_28901 | ENST00000326279.9 | chr1_26429012_+ | -1589.90 | -1589.80 | -1592.40 |
CAediting_28902 | ENST00000326279.9 | chr1_26429015_+ | -1590.20 | -1589.80 | -1592.40 |
CAediting_28903 | ENST00000326279.9 | chr1_26429045_+ | -1588.80 | -1589.80 | -1592.40 |
CAediting_28904 | ENST00000326279.9 | chr1_26429072_+ | -1589.10 | -1589.80 | -1592.40 |
CAediting_28905 | ENST00000326279.9 | chr1_26429078_+ | -1589.80 | -1589.80 | -1592.40 |
CAediting_28906 | ENST00000326279.9 | chr1_26429094_+ | -1588.90 | -1589.80 | -1592.40 |
CAediting_28907 | ENST00000326279.9 | chr1_26429149_+ | -1589.80 | -1589.80 | -1592.40 |
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Relation with ADAR for LIN28A |
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Cancer | CAeditomID | position | ADAR1 (p-val) | ADAR1 (coeff.) | ADAR2 (p-val) | ADAR2 (coeff.) | ADAR3 (p-val) | ADAR3 (coeff.) |
TGCT | CAediting_28878 | chr1_26428615_+ | 1.11587198905008e-08 | 0.53097848482046 | . | . | . | . |
TGCT | CAediting_28879 | chr1_26428620_+ | 6.54209109152039e-09 | 0.476834900320474 | . | . | . | . |
TGCT | CAediting_28880 | chr1_26428640_+ | 9.04042791929014e-05 | 0.336547040119571 | . | . | . | . |
TGCT | CAediting_28881 | chr1_26428641_+ | 4.62368450254528e-06 | 0.381399485145983 | . | . | . | . |
TGCT | CAediting_28882 | chr1_26428645_+ | 0.0193562117742255 | 0.21064342667123 | . | . | . | . |
TGCT | CAediting_28883 | chr1_26428718_+ | 2.33121754565203e-14 | 0.6606691827726 | . | . | . | . |
TGCT | CAediting_28884 | chr1_26428785_+ | 8.93287930324141e-06 | 0.463633044238556 | . | . | . | . |
TGCT | CAediting_28885 | chr1_26428800_+ | 3.18585877172669e-10 | 0.575065227947468 | . | . | . | . |
TGCT | CAediting_28886 | chr1_26428812_+ | 2.80410451553565e-06 | 0.551511920618118 | . | . | . | . |
TGCT | CAediting_28887 | chr1_26428818_+ | 3.64781575722451e-08 | 0.584616059909602 | . | . | . | . |
TGCT | CAediting_28893 | chr1_26428964_+ | 5.48565518506475e-06 | 0.510216789035833 | . | . | . | . |
TGCT | CAediting_28894 | chr1_26428965_+ | 3.77330526390326e-05 | 0.505635668870597 | . | . | . | . |
TGCT | CAediting_28900 | chr1_26429011_+ | 0.000112714491041011 | 0.514393963437128 | . | . | . | . |
TGCT | CAediting_28903 | chr1_26429045_+ | 0.000393957330288726 | 0.446428607153418 | . | . | . | . |
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Relation with cancer stages for LIN28A |
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Cancer | Stage_type | CAeditomID | position | P-val | Coeff. |
TGCT | clinical_stage | CAediting_28883 | chr1_26428718_+ | 0.018013410000302 | -0.317921467216725 |
TGCT | pathologic_stage | CAediting_28883 | chr1_26428718_+ | 0.00765433548967299 | -0.352803880936388 |
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Relation with survival for LIN28A |
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Cancer | CAeditomID | position | KMpvalue | Coxpvalue | CoxHR |
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RelatedDrugs for LIN28A |
![]() (DrugBank Version 5.1.8 2021-01-03) |
Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for LIN28A |
![]() (DisGeNet 7.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |
LIN28A | C0006826 | Malignant Neoplasms | 1 | CTD_human |
LIN28A | C0007621 | Neoplastic Cell Transformation | 1 | CTD_human |
LIN28A | C0027626 | Neoplasm Invasiveness | 1 | CTD_human |
LIN28A | C0027651 | Neoplasms | 1 | CTD_human |
LIN28A | C0086692 | Benign Neoplasm | 1 | CTD_human |