HERV16
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000162 |
|---|---|
| TE superfamily | ERV3 |
| TE class | LTR |
| Species | Theria_mammals |
| Length | 4996 |
| Kimura value | 32.10 |
| Tau index | 0.9660 |
| Description | ERVL endogenous retrovirus, HERV16 subfamily (internal) |
| Comment | LTRs of HERV16 are listed in Repbase as LTR16 sequences. HERV16 is related to HERVL and is relatively old (>20% divergence from consensus). Bases 300 to 1300 encoded a GAG protein closely similar to the murine "retrovirus restriction polypeptide" (PIDs e24674 and e242676). |
| Sequence |
GTTGGTACCAGGAGTGGTCCGAGAAAGCAGACGNTNCTAAGATGGGATTTTGGAGCTGGATCACCCGCCGNCCGGCTGGCAATGAGGACCCCATCACTGGTGGTAGGTGGAGCACGGATAGCCCCTGGCACGAGGTAGCGGTGCAATTGTTAAAACTTTCACCGGTGGTGAACTGGGATGGNATACCGGTGGAAAGAGAATGCACTGGCNGGTGCAATGTNTCAGGCGTTTGAGAAATATGGGANGAATTAANTACATGNAAGGACAATGGAATTGGATGGCTGTTGCTAAGCNCGACTGACGCTCTGGAAAAAGACAATGAAAGGCTGAGAGCGATTAATCGNCAATTNAAAGCTAAGTGTGAAAGCCAGAGGGCCTCCTTGGCAGCATATAAAGAGACTCTCATCTCCTGCAGCCGGAGGGCAGAGAAAGCTGAGGATCAGGCCCAGGACTTAATCAGAGTAGCAGAGCTCCAGAGAAGGTTGAATTCTCAACCNAGGCAGGTCTGCTATGCCAAGGTCAGGGCCCTGGTTGGGAAAGAATGGGACCCTGANACNTGGGATGGGGACATCTGGGTCGATGCNCCTGAAAATCTTGAATCCCCAGATTCCCCTGAACCCTCTGGGCCTGCAGAAGTGGCCCACTCCTCCCTGTTAAGGGCTAGCACTCNCTCCTTGCTTCGCGNGAAGACGATGCAGAGGCCTCTNCCTTNGCAAGACAACATGCGCCCCCCTCAGGATCTGCCCCCACCTCCCCTCCTGGCCACCAGACCAATAACTAGGGTTAAGTCACAGCATAACCCGGCCGGGGAAGTGCTGGGCCTGNTAAGGGAGGAAAGGGACTATACCCCAAAGGAGCTGCAGGACNCGNCTAGCCAGCATGTACCGGCAGGACCGGGAGAGTACGCATGGGACTGGATTCTGAGGGTGCTGGATCAAGGGGGNCGGAACATAAAGTTGGATAAGGGAGAGTTTATCGATNTGGGAGCACTCTCCCGNGATACAGGATTTAACACCCTGGCAAGGACCCCGGGAGATGGTGCNAACACGCTGCTAGGATGGCTCCTGGAAGCNTGGAGAAAGCGATGGCCCACACTAAGTGAAGTAGAAATGCCAGAACTGCCGTGGCAGACGGTGGAAGAAGGGATCAAAAGGCTCAGAGAAGTGGGCATGCTAGAGTGGATATACTATGTAAGGCCGGAAAACCCACCAGATGACTATGTTCCGCGGGAGGGCCCAGAGGACACNCCATTTACCAAAGCNATAAGGAATGCGCTGGTGAGAGGGGCACCAGCATCACTGAGAAGCTCAGTGGTGGCTNTCCTCTGCAGGCCAGGGCTGACGGTAGGAGANGCCGTTACAGAACTGGGCTCNCTGATAGCAATGGGGATGATAGGACCCCGAAATAATAGAGGCCAGGTGGCGGCGCTTAACCGTCAGAAGCAAGGTGGGCGCAATTATCGTAATGNACGGCAAGGTCGGAGTGGCAGCCGGGGGGGCCTGACCCGCAGAGAGCTATGGAGATGGTTAATAGAACACGGCGTCCCTAGGGGCAAGATAGATGGGCAGCCAACAGGAAGNCATGGACAGTTAATAGAACATGGCGTCCTAGGGGCAAGATAGATGGGCAGCCAACAAGGGTGTATTGCTCAACTNAAACAANCAAAAGAAATCAAGGATGGATGANCAGGAGGCTGAGGGCAGTCGCCCCAATAAAAAGTCACGATCCCTTGCCCAGTTTCCGGACCTGAGCCAGTTTTCAGACCCGGAACCCATTGACTGAAGGAGAGGCCGGGTCCCCAGGAGGAAGGACCCTGCAACACCACGGCAAGTGTACACGGTAATGATTCCCCCAGTCCTTCCCCAAAGGGACCTACGGCCATTTACTCTGGGTAACCGTACACTGGGGAAAGGGGAATACCCAGACATTTCGAGGACTGTTGGACACAGGGTCCGAGTTGACATTGATACCCGGAGACCCGAAGCGTCATCATGGCCCTCCCGTTAGAGTGGGGGCATATGGGGGCCAGGTAATAAATGGAGTCCTGGCCCAGGTCCGGCTCACAGTGGGTCCACTGGGTCCACGGACCCACAGTGGTCATTTCCCCGGTCCCCGAATGTATAATTGGAATGGACATACTTGGTAGTTGGCANAACCCCCACATTGGTTCCTTGGCCTGTGGGGTAAGAGCTATCATAGTGGGGAAGGCCAAGTGGAAGCCTCTGAAACTGCCCTCACCTTCTCCGGNCAAGATAGTAAATCAAAAACAATATCGCATCCTCGGGGTGGAGAATGGCAGAGATTAGTGCCACCCTTAAAGACCTAAAGGATGCAGGAGNTGTGGTCCCCATCATATCTCCATTTAATTCACCAGTNCNGGCCCCTGCAAAAACCAGACGGATCCTGGANGACGACAGTGGACTACCGCAAACTCAACCAAGTAGTANCCCAATTGCAGCTGCTGTGCCAGATGTGGTATCTTTGCTAGAGCAGATTAACACGGCCTCAGGTACGTGGTATGCGGCCATTGATCTGGCGAATGCGTTCTTTTCCATCCCTATCAGAAAGGAGGATCAGAAGCAGTTCGCATTCACNTGGAACGGACAACAGTATACATTTACAGTCTTGCCCCAGGGCTNTGTTAACTCTCCTGCCCTCTGTCATAATATAGTCCGAAGGGACCTGGACCATCTGGACATTCCGCAGAACATCACATTGGTCCACTATATCGATGACATCATGCTAATCGGACCGGAATGAGCAAGAAGTGGCAAGTACGTTGGAGGCCTTGGTAAGACACATGCGCTCCAGAGGGTGGGAGATAAACCCTACGAAGATTCAGGGGCCTGCCACATCAGTGAAGTTTTTAGGGGTCCAGTGGTCTGGGGCATGCCGGGACATCCCCCCAAAGTAAAGGACAAATTATTGCATCTTGCACCTCCCACCACNAAGAAGGAAGCACAACGCCTGGTAGGCCTCTTCGGGTTCTGGAGGCAGCATATTCCACACTTGGGAATACTGCTCCGACCCATNTACCGGGTGACGCGAAAGGCTGCCAGCTTTGAGTGGGGCCCAAGCAGGAAAGGGCTCTGTAGCTNACCGCATATCGTGTNCGAANCGCANANNCGGNCCTCCAAGTCATAAAGTNGGGCGGGCCCAGCAGCAGTCCATCATAAGGTGGAAATAGNATATCCGAGATTAAGCCCGAGNAGGACCAGAGGGCGCAGGTNAGNTNCATGAGCAGGTAGCCCAGACCCCCATGNCACCCACCACNGTTGCACCAGCGCCTCTCCTTCGGCTCGCACCTATGGCCATATNGAGGNNTGTGGTCCCGTATGACCAGCTGAAGGAAAGCTCGAGCTTGGTTTACAGGATCAGCTCGGTATGTGGGCGCAAGCCAAAATANGTGGTGGCTGCACTACAGCCCCATTCAGGGGTGGCCCTGAAAGGCAGCAGGGAGTGAAAATATCTTCCCAGTGGGCAGAGCTGCGAGCAGTGCACCTGGTCATCCACTTTNCGTGGAAGGAGAAGTGGCCCGAGATGGTAATATATACGGATTNCTGGACAGTGGCCAATGGCCTGGTCGGCTGGTCAGGAGCTTGGAAGGAAAAGATTAGAGANAGGGAAGTCTGGGGTAGAGGCATGTGGATAGACATATNGGAAGTGGCACGAAATACGAAGATTTTTGTATCGNTNNTATGTTAACGCTCACANGAAAGCATCNACCATGAAAGAGNCACTGAACAACCAAGTAGACAAAGTGACTTCGACCACTGACGTTAGCCAGCCTTCGTCCCGGCCTCCTCAGANCTGGTNCAACGGACATCTCAANAAAGTAGCCATGGTGGCAGAGATGGAGGCTACGCATGGGCCCAACAGCATGGACTCCTATNCACCAAGNCGATCTAGCTGCTGCCCCGTNTGAATGTCCAACCTGCAGCAACAGAGACCAATGCTCTACCTCNAATACGGCACTATTTATGGAGACCACTTAGCGGCGAATTGACTATATTGGACGCCTTCCATCCTGGAANGGNCAGNGATTCATTCTCACAGGAATANATACNTATTCCGGGTATGGGTTTGCCTTTCCTGCCTGCANAGCCTCATCNAGCATCTGAGGGNCTTAGGAGTGCCTGATCCACAGGCATGGAATCCCACACAACATAGCATCTGANCAGGGCGCTCACTTCACAGCAAAGAAGNGGCACAAGTGGGTCCANAATAACGGGATCCACTTATCNTATCACGTACCGCACCATCCAGAAGNAGCTGACCTNATAGAACGCTTCTGAAGGCACAGNTGAAGCACCAGTNGAGGCGAACTCTGAAAGAATTGGGTGCCATCCTCCAGGATGCAGTATATACATTGAATCANAGGCCTATNCGTNGGGCNTTGNNTCTAATNGGGAGAATGGGATTAGGAATAAGAGGTGAAAGCAGGAGTGTGCCTACTCCCCATCGTAGTGGCCCACAAGGATCACAGCAGTGGTTTGAACACGGATTGGACTACTGATATCCAGGAATCGCCGCACAAGAAGGNGAATCCACATTTGGCAGGAGTAATTGACCNTGATCANCAGGAGGGGTAGGGCTGCTNTCGCANAATGAGGAAGAAAGGAATATGTNTGGAACCAGGTGATCCNCTTGGGTGCCTCCTGGTACTCCCTTGCCCCATTTAACTGTAAATGGACAATNCCACCGAAAAGAGCTCGGACCNCTCCGGAATGAAGGTTTGGNTCACATCGCCNGGTAAGCCACCAAGACCTGTCGAAGTGATAGCTGNGTGAGGGANATCTAGAATGGATAGTAGAAGAGGGAGACGATGAGTACCAGTTNCGGCCCCGAGACCAACTGCAGCAANNGGGGCTGTAGTTCGTCCCACTAACCTCCCTCTTCTAAGTTTCGCTTCAGAAAGAGAAGCTTAAAGGAATAATGGAGGAACTGCTCCNNGAACCTGNGTGGAGAAGTAGATCCGTCGAGTACAAAGGTGGAC
|
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 |
|---|---|---|---|---|---|---|
| HERV16 | JUN | 2732 | 2741 | - | 17.08 | ATGATGTCAT |
| HERV16 | TGA6 | 2732 | 2741 | - | 16.80 | ATGATGTCAT |
| HERV16 | Ar | 1532 | 1547 | - | 16.74 | AGGGACGCCGTGTTCT |
| HERV16 | IDD4 | 2910 | 2924 | + | 16.73 | AGTAAAGGACAAATT |
| HERV16 | MYB17 | 101 | 111 | - | 16.69 | TCCACCTACCA |
| HERV16 | TB1 | 1492 | 1500 | - | 16.64 | GGCCCCCCC |
| HERV16 | MYB15 | 98 | 110 | + | 16.62 | TGGTGGTAGGTGG |
| HERV16 | IDD5 | 2910 | 2923 | - | 16.57 | ATTTGTCCTTTACT |
| HERV16 | ARALYDRAFT_496250 | 2341 | 2348 | - | 16.55 | GGGACCAC |
| HERV16 | ARALYDRAFT_496250 | 3326 | 3333 | - | 16.55 | GGGACCAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
