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 | BPC5 | 416 | 445 | - | -48.06 | GGAGGAAGGGTCAGCGAAGGAGGGATCGAG |
| AmnL2-1 | BPC5 | 2480 | 2509 | - | -48.40 | AATAGCAGAGGGAGAGAGAAATTAAGAGGT |
| AmnL2-1 | BPC5 | 1495 | 1524 | - | -48.60 | GCAGAGAAGGAGCTACCACCAGAGACAGAG |
| AmnL2-1 | BPC5 | 1066 | 1095 | - | -48.68 | AGAGAGCTGGGGAAGGTACCAGAGGCAAAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
