AmnL2-1
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001732 |
|---|---|
| TE superfamily | L2 |
| TE class | LINE |
| Species | Amniota |
| Length | 2613 |
| Kimura value | 33.15 |
| Tau index | 0.0000 |
| Description | AmnL2-1 subfamily |
| Comment | The ORF 2-2488 encodes (part of) a pol most closely (45% id., 63% sim.) related to CR1-8_DR_pol and CR1-9_DR_pol in zebrafish. Pos 2396-2533 correspond to UCON49. Currently, AmnL2-1a only differs by a 90 bp replacement of a 22 bp sequence at 2509-2532, but no sites seem to cosegregate. |
| Sequence |
CTTCATTCAAGTTCTCCATTTCCCCCTCCAATCTCCTCCCTTACTTCAAACATCTTATCCCTATGACTTCCTCTCCCCTACTGGTTTCTCCTTCTCTGATTTCATCCTCACTGGGAACTTCACTGCGCNTGTTGACGTCCCCCTTGACCTNCTTNNCTCCAACGTCCTCTTCATCCTTGNCTNCCATAGNCTTACCCANTCTATCATCTCTCNCACCCGTATCNACGGCCATGCCCTCGTCATCAGNAACGCTCNCCCTCCCCTTTCCTATTCCGTTCATGATCTTNCCTACGCNGGCCACTCCNTGGTTATGTTTGNGCACTCTTTTCACCGNCTCACCCCTCAGAAAATTACCCTATCTCACTGCTCTCTCAAGCACCTTGATCCCGCTAGACTCTCCAGCCTGATTTGCTCTCTCGATCCCTCCTTCGCTGACCCTTCCTCCTCAGCCCCTTGCGTCGATGCCTANAACCCTGTCCTGTCTACTGNCCTTAACCAGCTCGCNTCCATCNANACNCGTACTGTTTCCTNCGCGCCAGATTCCCCCCCGCNTNCNGATCAGNTACGGAACTTCAAGTGTACAAACCGGCNCCTCGAAAAACAACGGCATATGTCCCATCTTCATGTCCGTTACGAGATCTGGAAATCTCATCAGATACTCTACAGGGATGCCCTCTGGGCTGCAAAGTCTAATTTCTACTCCTCCCTCACTTCCAAAGGTGCTGGTAATCCTTGCTCCCTCTTCCATACTATTAATTCTCNTCTCCACCCACCCAGCTCGCCCTTCCCTCCTAGCCTTTCCCCGGCCAGGTGCGAGGAATCTGCTTCCTTCTTTCAATCTAGGATTGCCCTAATTTGTGACANTATCTTCTCCNGCCCTANCACCTCCCTCCACTGATCCTTTCTCACTCCCCTTCTTCNCCTCTCCCTNTTNTCCCTGGACATTCCTGACATCATCCAGTCCCTNAAGAAAACTACCTCCTCTCTCGACCCCCTTCCNTCTCCTGTCGTTTGGTCCTGTCTCCCCACCCTTGCTCCCTACATTGCTACCACTGTCAATAACTCCTTTGCCTCTGGTACCTTCCCCAGCTCTCTAAAATCTGCCACTGTCCGTTCCCTTCTTAAAAAACCCTCCCTTGACCCCGACACTCTCTCTAACTACCGCCCTATCTCTAACCTTCCCTTTCTCAGCAAAGTGCTTGAGAAAGTAGCCTTCTCTCATCTCTCCAGTCACCTCTCACACAACANTATCCTTGACCGNTTTCAGTCTGGGTTTCGCTCTGGCCATAGCACGGAAACCGCTCTCCTCCGTGTAGTTAACGACCTCCTCCTTTCTGCTGATGANGGCTCTTTCTCCTTCCTCATTCTCCTTGACCTCAGTGCAGCCTTCGACACTGTGGACCATTCCATCCTCCTGGACCGCCTCCANAGCTATGCAGGCGTCTCTGGTTCCCTCCTGTCATGGTTCCGCTCCTACCTATCAAACCGCTCTTTCTCTGTCTCTGGTGGTAGCTCCTTCTCTGCGCCAAGACCCCTCCTCTATGGAGTCCCACAAGGTTCAGTTCTCGGCCCTCTGCTCTTTTCTATCTACCTTCTCCCTCTCGGTCATCTTNTCTCTACCTTTAACCTTAGCTACCACTTTTACGCTGATGATACTCAGCTGTACATATCTTTCGACACCTTTAATGACTCCTCCCTGTCCACCCTCTCTGCCTGTCTTGACCAAGTAAACTTGTGGCTTCGTCTCAGCTTCCTTCAGCTAAATGTCTCAAAGACAGAAGTGCTTCTCTTGGGCAAGAGGAGCATCCTCAAACACAACTCCATCTCCTCTATCTCCCTCCTCGACTCAGACCTCCCATTTGCCTCCGCTGTCCGTAACCTTGGCGTCATCCTTGACCCTGAACTCTCCTTCTCCTCCCACATCTCCTGTGTCTGCAAATCTGCCTATCACCACCTCCGCAACATTGCCCGTGTATGCCACTGCCTCGACTCCACCTCTGCTGAAATCCTCATCCATGCCTTCATCTCCTCTCGCCTTGACTATTGCAACTCCCTTCTCTATGGCCTCCCCAAGTCCCAGCTCTCCAGACTCCAGCATGTGCAGAATGCTGCTGCCCGCCTTCTCACACGTACAAAGAAGCGCGACCACATCACCCCCATCCTCAAACAACTCCACTGGCTCCCCATTCATTTCAGGATCCAGTTCAAAATTGCCTTCCTTGTTTTTAAAACCCTCCATGGACTTGCTCCAGCCTACCTCACGGACCTTGTCTCTCTCTACTCCCCTCCCCGCTCCCTCCGCTCGTCTAGCACCGGCCTCCTCTCTGTCCCTTCACACAATCTCGCCACTGTTGGTGCGAGAGCCTTCTCCTCTGCAGCTCCTGCCATCTGGAACAGCCTTCCTGTATCTCTCCGCCTCATCGACTCTCCATCTCNTTTCAAATCTCANCTGAAAACATATCTTTTCTCCCTTGCCTATACCTCTTAATTTCTCTCTCCCTCTGCTATTATTTATTATTTAACTCTGTAACTGTATTATTTAACTCTGTAAAGCGTTTTGGGATACAGTTTGTATGAAAGACGCTATACAAAATAAAGTTGTATTGTATTGTA
|
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 |
|---|---|---|---|---|---|---|
| AmnL2-1 | RAMOSA1 | 2489 | 2502 | - | 19.84 | GAGGGAGAGAGAAA |
| AmnL2-1 | ZNF16 | 2168 | 2188 | - | 18.47 | AATGGGGAGCCAGTGGAGTTG |
| AmnL2-1 | PRDM9 | 1686 | 1705 | - | 17.97 | GGTGGACAGGGAGGAGTCAT |
| AmnL2-1 | eor-1 | 1492 | 1504 | - | 17.21 | AGAGACAGAGAAA |
| AmnL2-1 | ZNF675 | 1403 | 1421 | - | 17.20 | GGTCCAGGAGGATGGAATG |
| AmnL2-1 | ZNF148 | 2283 | 2292 | + | 17.19 | CCCCTCCCCG |
| AmnL2-1 | BPC1 | 2481 | 2504 | - | 16.88 | CAGAGGGAGAGAGAAATTAAGAGG |
| AmnL2-1 | eor-1 | 85 | 97 | - | 16.71 | AGAGAAGGAGAAA |
| AmnL2-1 | knrl | 847 | 857 | - | 16.62 | AAATTAGGGCA |
| AmnL2-1 | MAZ | 2283 | 2290 | + | 16.08 | CCCCTCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
