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
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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 | TFAP2A | 670 | 682 | - | 14.74 | AGCCCAGAGGGCA |
| AmnL2-1 | Clamp | 2489 | 2502 | - | 14.72 | GAGGGAGAGAGAAA |
| AmnL2-1 | TFAP2C | 670 | 682 | + | 14.66 | TGCCCTCTGGGCT |
| AmnL2-1 | TGA6 | 948 | 957 | - | 14.64 | ATGATGTCAG |
| AmnL2-1 | KLF1 | 1024 | 1031 | - | 14.64 | GGGTGGGG |
| AmnL2-1 | GAL4 | 2104 | 2118 | - | 14.62 | CGGGCAGCAGCATTC |
| AmnL2-1 | NEUROG1 | 606 | 615 | - | 14.60 | GACATATGCC |
| AmnL2-1 | eor-1 | 2491 | 2503 | - | 14.60 | AGAGGGAGAGAGA |
| AmnL2-1 | ZNF189 | 2391 | 2399 | - | 14.56 | GGCTGTTCC |
| AmnL2-1 | ZNF341 | 2392 | 2399 | + | 14.55 | GAACAGCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
