HERV1_I
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000163 |
|---|---|
| TE superfamily | ERV1 |
| TE class | 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 | ZNF701 | 8783 | 8799 | + | 23.57 | GAGCACCAAAGGGGGGG |
| HERV1_I | CDF5 | 4861 | 4881 | - | 19.74 | TTTCCTTTTTATTTTTGATTT |
| HERV1_I | Rarb | 2963 | 2979 | + | 19.23 | AGGTCAAAGAAAGGCCA |
| HERV1_I | DOF3.6 | 4861 | 4881 | - | 19.05 | TTTCCTTTTTATTTTTGATTT |
| HERV1_I | Tcf21 | 5719 | 5728 | + | 19.03 | AACAGCTGTT |
| HERV1_I | Tcf21 | 5719 | 5728 | - | 19.03 | AACAGCTGTT |
| HERV1_I | REST | 5768 | 5787 | - | 18.67 | GAAGGACCATGGGCAGCACC |
| HERV1_I | daf-12 | 423 | 436 | + | 18.24 | GTGTGTGGGTGCGT |
| HERV1_I | TCP7 | 3530 | 3540 | + | 18.18 | GTGGGGCCCAT |
| HERV1_I | MSC | 5719 | 5728 | + | 18.01 | AACAGCTGTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
