HERV1_I
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000163 |
|---|---|
| TE superfamily | ERV1 |
| TE order | LTR |
| Species | Catarrhini |
| Length | 8801 |
| Kimura value | 13.19 |
| Tau index | 0.0000 |
| Description | Internal region of an ERV1 endogenous retrovirus, HERV1_I subfamily |
| Comment | The associated LTRs are the HERV1_LTR variants. Target site duplications are 4bp. The HERV1_I consensus encodes gag, protease, reverse transcriptase, RNase H, integrase and envelope proteins. HERV1 elements in the genome are ~6% diverged from the HERV1_I consensus. |
| Sequence |
TTTCTGGGGGCTCGTCCGGGATTGGAGACGGCAGGTTTCTGTCTCCTTTGCCTGTGGGCTGGAGCCCCGGGNCGCGGGAGACCCGGGACCCNAGGCGCCACCGGGNAAGACTTAGCCCGGAAGGAGANCGGCTCTCCCGCGTCCCGGNGCCCTCCCCCGGCAGCGCAAACGGAACCGANNGAGGGGCTGCAGGACGATCNCAGGAGCAGCGCGCAGNCAGNCCGCTGAACCGCGGTAAGGTTGGGCCCNAGGAAGGCCCGTCCCATAAGGACGGAAGGGGAGCCTGATCACCTCCCGGGGCGCGACNACTAGTCCGACCCAGAGGGGCTGGGGGCGGCGGGAGTGGCCCGCCGATTCGGATGAANCTCACGCCCCCACTACAAGCGAGAGTGGTTCACTGGGTCTGGAGACGGGAACTGGAGGTGTGTGGGTGCGTGCGAACCNACCCGGGACACGAGGGAGGCTCGTTTCATCCGATGAGGTGGGGNAGGAGTGGTGTGTGTATGTGTGTGAATGTGGGAGCCTAACTAGGCTCACCCGGGACACGAGAGAGGCTCGTTTCATCCGATGAGGAGTCCTGGGGCGGGGGAGGTGTGTGAAAGTGTGTGAAAGAGACGGTCTCGGGAGAGGCCAACGCGGGGAGTGACGTGGGGAGGCACAGATCTCTTAGCGCGGACTGTGTGCTCCGAGGCGAGTGTGGGANAAACCAGACCTAGGNCACTGCATACGGCCGATAGGACCAGCTCCACAGCTNCACAGCAGCAGTTGGCTGTGACCTGGCTAAGCAGCGTCCGAACCTCCCGTAATAGGACCCGGTCTGGTGGATCCGAGAGTGAAAGTGAGAGTGAAAGCGCGCCGCGAGGGAGGAAATGGGAGGAAAAGCATCGAAGCCNACTCCATTGGAGTGCATGCTGAAGAACTTTAAGAAAGGTTTTAATGGTGATTATGGGGTNAAGCTAACTCCNCAGAAGCTGAGAACNCTTTGTGAGATAGACTGGCCNTCTTTTAATGTAGGGTGGCCGGCCGAGGGNACNATAGACAGGGAAATAATTGGCCGNGTGTTTCGGGTGGTCACCGGGGTCGGAGAACAGCCNGGGCACCCGGATCAGTTTCCGTATATNGACTCCTGGCTAAGCGTAATTCAGACCCGCCCNAAGTGGCTGCAGGCCTGCTTTGAGGNNTACTGTAAGACTCTAGTGGCCCGGACAAAACNAGGAACCATAGAAAAGACCCGCAAGGCGCAGNCNCAAGAGAAGGAGTCGCAGGGAAAGCAGAAAAAACCTGTCCTACAGGCCCCGCCNGAAGAGTTAGAAANTCCACCCCCCTATGCNCCAATTTATCCATCTCTGGCAAGGCTTAGGCAGGAGGCCGCCCCGGCAGCTGCCTCCGGAGGNTCAGACTCAGAGGAGAGCACCCCTCAGGCNNCACCACGCAGGGAGGAGCCAGAGCCCCTGCCTGANAAGCCAAGGGAGGAACTCCAGGATGAGGTCGGCCGCCTCAGGTCAGGCCGCGCCCGAGCNATGCAGATGCCCCTCCGAGAAACNNGGGGACAAATTTATTTGGATGCACAGAATGAAGTCCAAGGGGGAGAACGGCTCTTCGTTTATCAGCCCTTCTCTACTACTGATCTCTTAAATTGGAGACAGCATACTCCCTCCTATACGGAGAAGCCCCAGGCTCTTATAGACCTAATGCAGTCCATCTTCCTAACTCACAACCCTACCTGGGCTGATTGCAAACAACTTCTTCTGTCATTGTTTAATACGGAAGAGCGCCGNAGAGTTATACAAGCGGCTCNCCAGTGGCTGGAGAGCAATGCGCCTGCAGGCACAGGAGATGTCAGGCAGTATGCACAACAGGCNCTCCCGATAGAGGCTGACCCAGGCTGGGACCCNAACCAGGCTCAAGGGCTACAAAGCTTGCAGNGGTATCGAGAGGCACTCCTAAATGGAATAAAGGCTGGAGGGAAAAAGGCAACGAATATCGGAAAGGTCTCAGAGGTCCGCCAGAAGCCAGATGAAAGTCCCAGTGAATTTTATGAGAGGCTCTGCGAGGCTTACCGGCTTTACACGCCATTTGACCCAGAGGCTGCAGGNAATCAGTGCATGGTTAATGCGGCATTTGTAAGCCAGGCGCAAGGNGACATNAAGCGAAAGCTTCAGAAGTTGGAAGGNTTTGAAGGTATGAATATTACCCAGCTTATCCAGGTGGCTACTAAGGTGTTTGTAAATCGGGATGAGGAGGCCAAGAGAGAAGCCAAGCGCAGAGCNAAGGAAAAGGCAGANTTGCTGGCNGCAGCCCTGGTTGGAAGAGAAACTGGNTTTGCGAGAGGACGTGGACGTGGTCGTGGATGCGGTCACGGTAGAGGACAAGCTAGGCCAGGCCAGGAGGCCAGGNCAGGNCAAGAGGGCCGGCCTAGGCTNGAGAGAGATCAATGTGCGAGATGCAAGCAGANAGGGCACTGGAAGGATGAATGTCCAGAGAGAGAAAAGGATAAAGGCAACAACCAGGGACAGAATGGCTGGCCAGGGCCCCCTNCNGCCGCCGGNCANGGCGTAGTAGGATCNGACGCGGATCTAATCGGGCTGGCAGGAGTCGATGATTATTNTGAGGACTGAGACAGACCGGGCTCCATCTCATTAGGCCCCGAGGAGCCTATGGTCTCAATGGAGGTAGGGGGCCGAAAAATGGACTTTATGGTNGATACTGGTGCTGAGCACTCGGTNGTGACTCAAGCAATTGGGCCGCTGTCTAAAAACTATGCCAATATNATTGGGGCTACAGGNGTCACAGAAAAGACGCCTTNCTTCAAATCNAAGAGATGTGTGATTGGAGGNCAAGAAGTCCAACACGAGTTTTTATATTTGCCAAATTGTCCGGTGCCCTTGTTAGGAAGAGACTTGCTCCAGAAACTGCAGGCNCAAATCTCCTTTACACCGAGAGGGGACATGACCCTAAACCTAGGTCAAAGAAAGGCCATGGTANTGACCCTTACCGTCCCNANAACAGAGGAATGGAGACTCTATGAGAGNAGTTGCNAGGAATNTGNAAAGANGCACANCGCAGCTGAGAAAGAGGNANTGTNTACGGANTTACTTCTCAAGCTGCCAGGGGTCTGGGCGGAGGACAATCCCCCGGGGCTAGCCGTAAATCAGGCACCCGTAGTGGTGGAGCTGCTGCGAGGNACCTACCCAGTGCGGATCCGTCAGTATCCCATTCCCGTAGAGGCCACCCANGGGATTACAAAACACTTAAANCGGCTCCTTGAATTTGGGATAATAGAAAGATGTGCCTCCTCNTGGAACACTCCNCTGCTGCCGGTGTTAAAGCCCTCTGGNGACTACCGGCCNGTACAGGATTTGCGGGCNGTAAACAAGGTCGCGGCTACACTGCATGCCATTGTGCCCAACCCGTACACNATGCTTGGGCGAATNCCTGCTGATGCTGCTTGGTTTACATGCTTGGACATNAAGGATGCGTTCTTCTGCATCCGACTAGCCCCTGNAAGCCAGGGCATCTTTGCCTTTGAGTGGGGCCCATCNCAGTATACCTGGACCAGACTCCCCCAAGGATTTAAAAACTCCCCAACCATCTTTGAGGAAGCACTAGCCTCAGACCTGAAGGCTTTCACGCCACCAAGTGACCGCTGTGTCCTGTTGCAGTACATAGATGATCTATTGTTGGCCGCACCCACAAGAGAAGAGTGCNTCCAAGGNACAGAGAGCCTCCTTCGNGTNCTGTGGGAGGCTGGCTATAAGGTGTCTAAGGAAAAGGCACAAATCTGTGGCCAAGGAGCNCGGTATCTTGGCTTTNACGTCTCCCAAGGGCAGCGTGAGCTTGGACGNGAGCGAAAAGAGACTGTNTGTAGCATTCCTCGGCCNGACACNAGGCGGCAAGTGCGGGAGTTCCTAGGGGCAGCTGGTTTCTGCCGCATTTGGATTCCAAACTACTCGCTCNTGGCAAAGCCNTTGTATGAGGCTACCAAAGNGGGGGAAAAGGAACCCCTCCTGTGGGGAAAAGAGCAGGACATGGCCTTCAAGGAAATCAAGAAGGCTTTGATCCAGGCCCCGGCATTAGGACTGCCAGACATGACAAAGCCTTTTTACCTGTATGTCCATGAAAGAAAAGGAATAGCTACAGGAGTCTTGGTACAAACGCTAGGGTCATGGTATCGGCCCGTGGCATATTTGTCCAAGCGACTAGACTTGGTGGCTATGGGATGGCCACCCTGTTTCAAGGCACTGGCNGCCACTGCCCTGTTAGCNGAAGATGCTAACAAGCTCACATTTGGACAGAGGTTGATAATTCGGGTGCCCCACACGGTCGTCACCCTGATGGAGCAGAGGGGGCATCGCTGGCTCTCTAACCCTAGGATGTTAAGATATCAAGGGCTCTTGTGTGAAAACCCNTACATAACCTTGGAGACTGTGAATACCCTAAATCCGGCCACACTGCTGCCAATAGAATGGGCGGAGCATGGAAAGCCCCCGTTGTGTGGCCCAGGGTATCACTGTTGTGTGGAAACAGTGGATGAAGTTTTCTCAAGCCGGAAAGACTTAAAGGACCAGCCCTTAAAAGACCCAGATGTTGAATACTTTACTGATGGAAGCAGCTTCATATCTGAGGGTGTCAGAAAGGCCGGATATGCAGTGGTNACACTGAACTCAGTAGCCGAAGCCCGCCCTCTGCCGGTCGGAACCTCGGCCCAAAGGGCNGAGCTAATAGCTCTCACNAGAGCACTGCTCCTGGCGAAAGGAAAGTCAGTAAACATCTATACTGACTCAAGGTATGCTTTTGCCACTTTGCATGCCCATGGAGCCATATATAAGGAAAGAGGATTATTAACTACTGAAGGAAAGGAAATCAAAAATAAAAAGGAAATAGAGCAGCTCTTAGAAGCCGTATGGGCTCCAAAAGAAGTAGCAGTCATCCATTGCAAAGGGCATCAAACAGGAGGAGGTGATGAGGCTAGAGGAAACAGAAAGGCGGACAGAGAAGCCAAAAGAGCTGCAATGACAGAGGTAACTAAGAAGGAAGAGACCCNTACCATGCCCTTACTGGAGCTTCCCCTTACAGAACCCCCTAACTACTCCTCTAATGAAAAGGCNTGGTTCGAGCAGGAGAGCGGAAGTTACCAGAAAGGAGGTTGGTGGAAGTTCTCAGATGGGAGGCTTGCCATCCCAGAAGCAATNGCCCCCCGGTTCATAAAGCAGTTTCATCAAGGAACGCATATGGGGAAAACNGCATTAGAGACTCTCGTAGGACGGCATTTCTATGTGCCGCGCCTAACTGCCATCACTCGAGCCGTTTGTGAGCAATGTTTNACTTGTGCCCAAAACAATCCANGGCAGGGGCCAACACGGCCCCCAGGGATTCAAGAAACTGGAGCNACGCCNTGTGAAAACCTGCTTGTGGACTTTACCGAGCTGCCTCGAGCCGGAGGCTACCGGTACATGCTAGTGTTTGTCTGCACTTTCTCAGGGTGGGTCGAGGCATTTCCCACCAGGACAGAGAAGGCTCGGGAAGTAACCAGGATCTTACTAAAGGACATTATTCCTAGATTTGGACTGCCTCTAACTTTAGGNTCAGACAACGGCCCAGCATTTGTGGCAGAAGTAGTACAGCAGCTAACGCAGATGTTAAAAATCAAATGGAAACTGCATACAGCCTATCGCCCACAGAGTTCTGGAAAAGTTGAAAGAATGAACCGGACACTNAAACAGCTGTTAAAGAAGTTTTGCCAAGAAACTCATCTAAGGTGGGATCAGGTGCTGCCCATGGTCCTTCTCCGAGTCAGGTGCACCCCTACTAAATTAACTGGGTATTCACCCTATGAGATAGTGTTCGGCCGACCACCCCCAATCATAACTCAGATAAAAGGGGATTTAAAAGAAATTGGGGAATTAACCTTAAGAAGGCAAATGCAAGCCTTAGGTGAGGCCATGCAGGAAATACAAGGGTGGGTAAGAGAAAGAATACCTGTTAGCCTCACAGATGCAGTACATCCCTTCCAACCTGGAGACTCTGTCTGGGTCAAACGATGGAACCCAACCACCTTCGGGCCTTTATGGGATGGCCCCCATATTGTGATCNTGTCTACCCCCACTGCTGTTAAAGTTGCAGGTATCACACCTTGGGTTCATCATAGCCGGCTGAAACCNGCAGCCNCAGCTCAGGACCAGTGGACCAGTCAACAAGACCCAGACCACCCGACNCGGCTGATCCTGCGGNGAAACCAAGCCGCNGCNGANAAGGACGACTGCCCTGCTCCGACCACACCGGAGGCTGGTCGGTCCACGCACGGCTGAAGCTTGAGGAAACATCAAGCCCTGCTCTAGTCACACAACTGGAAGCTGACTAGTCTACGCATGGCCGAAGCTTGAGGAAACGTCAAGCCCTGCTCTAGTCACACAACCGGAAGCTGACTAGTCTACGCACGGCCGAAGCCTGAGGAAGTCAACGNTAGATAAGTAAATGTGGATTGAATTTACAAGCGTAGTTATACTCTTACTTGTACTGATTGTTTTGCTGTCATGTTATCTTTGCAAATGCTGCCAAGCTTGTTGCCCAGAAGGGTGCCCGTGCATAGTATAAGCTTAATCATACTAGTAATACTGANGCTAACAGGCATGAAAGGGGACCAAGATGACTGTCATCACTGTATGATAGAAGCCTGGTCCGGAAAAGGTATGACTAAAACTCTGTTATACCAGACCTACTATGAGTGTACAGGGACTCATACGGGAACTTGTGTCTATAACCAGACTAGTTACTCGGTCTGTGATCCNGGAAACGGGCAGCCCCAAGTATGTTATGACCCAGAGTTCTTGCCCTATGACTTCTGGTTTGAAGTCCAAATTGGCGAACCCCTAATGCCATCATATACAAACCCCACAGAAACCGGGGTCGGTAAACTCGTAAACAAAACAGAGGTATTCCCTTACTCGCATAAAGGGCCTGTCTCCATATATTTTGATGCCTGCCAAGCTGCACATCTCAGCAAACTAAACAATATTGGGGCCGTCTGTAAAAATCTAGGACAAGAAAGAGTCAGCAGCAGAGCCGCCAAGGCCGTAACAGGAGAACCCGAAAAGGANTGCCCTGATTGTGACANTCAGTGGACCACACATGAGTTCAGCCAGCGCCTNTACGCAGGAAGAGTNGCTCTGCTTGCCAGCCAAGAGGCGAAGATNGGGTGCGCGACTGGAACATGCAACCCNCTCAATCTGACNATACTAAAGCCAAATATGCCTTTCTGGACTAAAGGGCATAAAGGAGNGCTAANCTTTGATCGGGAAGGAGCAAACCTAGGTATTCCNCTAGTCATTACNAAGAAGACCCAANGGGCCNAAGTTCAAGTTAGCCCAATGCAACAGTTCAGGTTTTNTAAATCCTTCAATGAACACTTTAACCCCGAGGNACCAAAAGTTCAAATTCCNCCNATATCAGCTGAAAACCTGTTCGCTCAGCTAGCCGAAAGTATTGCTANTAATCTNGGAGTCACCTCATGTTATGTATGTGGAGGTACCAATATGGGAGACCAATGGCCCTGGGAGGCTAGAGAATTGATGCCACAAGANAATTTTACCNTACCTGAATTTGTTACAAAGTTCAATGCAAACCCAAGTGTTTGGCTACTAAGGACCCCTATCATTGGAAGATACTGCATAGCACGNTGGGGAAAGGNCTTTCAAACCCAGGTAGGGGANACAACTTGCCTAGGTCAACAATATTTCGAAGAATCCGAGAACAAGACACAGTGGAGAAGCTTTATAGACAATTCCTCTGTGCCAGATTTTAATCCCCTCTTNCAGTTTCCAGCGCTAAATCAGTCATGGTATCAACTAGATGCTCCAAATGTTTGGAGAGCACCNGCAGGACTATATTGGATCTGTGGGACAAAGGCCTATCAACTATTGCCNGANAAGTGGACNGGAGCCTGTGTGTTAGGAACAATAAGGCCATCCTTCTTCCTACTCCCACTGNAGCAAGGGGAAGATCTAAGTTACCCGGTCTATGACGAAGANAGAAAAAGGGCCAGAAGAAACGTNTTTACNCAGATAAGTACCGTGGAAAAGATAAACACAAACATNAAGAAGGACATTGAAATAGGGAGCTGGAAAGACAATGAATGGCCTCCTGAAAGAATTATCAAATACTATGGGCCAGCTACNTGGGCNCAAGATGGGTCATGGGGNTACCGTACTCCTATTTACATGTTAAACCGAATCATAAGATTGCAAGCAGTACTAGAAATCATAGTCAATGAAACAGCCCGAGCCTTGGATTTGCTAGCCATACAGGCNACCCAGATGAGAGATGCCATATATCAAAATAGGCTAGCATTAGACTATCTCCTAGCCTCAGAAGGAGGAGTTTGTGGNAAACTTAATTTGACNAACTGCTGCTTACAAATCGATGACAATGGAAGAGCTGTCATGGAAATCACTGCCAGGATGCGGAAGTTAGCCCATGTCCCGGTCCAGACCTGGTCCGGATGGAGCCCAAATTCACTTTTTGGAGGATGGTTCTCATGGTTTGGAGGCTTTAAAACTTTGATAATCGGTTTTATAGCCATAATAGGNGGATGCCTAATNCTNCCTTGTCTCCTGCCTCTTCTCATCAGAAGCATCCAGTCCACCATAGAAGCAATAGTGGACCGGACAACTACCACCCGAATAATGGCNCTGCAAAAGTACCAACCGGTNCCCCAAGAAGAGTATGTACCCACNCAAGAAGAAATAGATAACTGTGGTGCTCTTTATTAATCTACATTTATGNCGAGCACCAAAGGGGGGGAA
|
TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| HERV1_I | MSC | 5719 | 5728 | - | 18.01 | AACAGCTGTT |
| HERV1_I | KLF12 | 580 | 588 | + | 18.01 | GGGGCGGGG |
| HERV1_I | KLF10 | 580 | 588 | + | 17.88 | GGGGCGGGG |
| HERV1_I | SP1 | 580 | 588 | + | 17.80 | GGGGCGGGG |
| HERV1_I | ZIPIC | 2295 | 2304 | + | 17.79 | GCAGCCCTGG |
| HERV1_I | CTCF | 4679 | 4693 | - | 17.75 | ACCGGCAGAGGGCGG |
| HERV1_I | RXRG | 2943 | 2956 | - | 17.71 | AGGGTCATGTCCCC |
| HERV1_I | EREB29 | 332 | 341 | - | 17.61 | CCCGCCGCCC |
| HERV1_I | KLF3 | 1506 | 1515 | + | 17.60 | GGCCGCGCCC |
| HERV1_I | RAX3 | 5142 | 5153 | + | 17.59 | GGAGGTTGGTGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
