L1M5_orf2
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000008 |
|---|---|
| TE superfamily | L1 |
| TE order | LINE |
| Species | Theria_mammals |
| Length | 3294 |
| Kimura value | 29.26 |
| Tau index | 0.8761 |
| Description | ORF2 from L1 retrotransposon, L1M5_orf2 subfamily |
| Comment | Present in eutherians. |
| Sequence |
ATGGTAGATTTAAACCCAANCATATCAATAATTACATTAAATGTAAATGGNCTAAACACTCCAATTAAAAGGCAGAGATTGTCAGACTGGATAAAAAAACAAGACCCAACTATATGCTGTCTACAAGAGACGCACTTTAAATATAAAGACACAGANAGGTTGAAAGTAAAAGGATGGAAAAAGATATACCATGCAAACACTAANCAAAAGAAAGCTGGNGTGGCTATATTAATATCAGACAAAGTAGACTTCAAGGCAAGAAATATTACCAGAGATAAAGAGGGACATTTCATAATGATAAAAGGGTCAATTCATCAAGAAGACATAACAATCCTAAATGTGTATGCACCTAATAACAGAGCTTCAAAATACATGAAGCAAAAACTGACAGAACTAAAAGGAGAAATAGACAAATCCACAATTATAGTNGGAGATTTTAACACNCCTCTCTCAGTAATTGATAGAACAAGTAGACAAAAAATCAGTAAGGATATAGAAGATTTGAACAACACTATCAACCAACTTGACCTAATTGACATTTATAGAACACTNCACCCAACAACNGCAGAATACACATTCTTTTCAAGTGCACATGGAACATTTACCAAGATAGACCATATNCTGGGCCATAAAACAAGTCTCAATAAATTTNAAAGGATTGAAATCATACAGAGTATGTTCTCTGACCACAATGGAATTAAATTAGAAATCAATAACAAAAAGATANCTAGAAAATCCCCAAATATTTGGAAATTAAACAACACACTTCTAAATAACCCATGGGTCAAAGAAGAAATCACAANGGAAATTAGAAAATATTTTGAACTGAATGANAATGAAAATACAACATATCAAAATTTGTGGGATGCAGCTAAAGCAGTGCTTAGAGGGAAATTTATAGCNTTAAATGCNTATATTAGAAAAGAAGAAAGGCTTAAAATCAATGATCTAAGCTTCCACCTTAAGAAGCTAGAAAAAGAAGAGCAAATTAAACCCAAAGNAAGTAGAAGGAAGGAAATAATAAAGATAAGAGCAGAAATCAATGAAATAGAAAACAAANANACAATAGAGAAAATCAACGAAGCCAAAAGCTGGTTCTTTGAAAAGATCAATAAAATTGATAAACCTCTAGCNAGACTGATCAAGAAAAAAAGAGAGAAGACACAAATTACCAATATCAGGAATGAAAAAGGAGACATCACTACAGATCCTACAGACATTAAAAGGATAATAAGAGAATATTATGAACAACTTTATGCCAATAAATTTGANAACTTAGATGAAATGGACAAATTCCTTGAAAAACACAANTTACCAAAACTGACNCAAGAAGAAATAGAAAATCTGAATAGCCCTATATCTATTAAAGAAATTGAATTTGTAATTAAAAACCTTCCCACAAAGAAAACTCCAGGCCCAGATGGCTTCACTGGTGAATTCTACCAAACATTTAAGGAAGAAATAATACCAATCTTACACAAACTCTTCCAGAAAATAGAAAAAGAGGGAACACTTCCCAACTCATTTTATGAGGCCAGCATNACCCTGATACCAAAACCNGACAAAGACATTACAAGAAAAGAAAATTACAGACCAATATCCCTCATGAACATAGATGCAAAAATCCTNAACAAAATATTAGCAAATCGAATCCAGCAATATATAAAAAGGATAATACATCATGACCAAGTGGGGTTTATCCCAGGAATGCAAGGTTGGTTTAACATTCGAAAATCAATCAATGTAATTCACCATATTAACAGAATAAAGGAGAAAAATCATATGATCATCTCAATAGATGCAGAAAAAGCATTTGACAAAATTCAACACCCATTCATGATAAAAACTCTCAGCAAACTAGGAATAGAAGGGAACTTCCTCAACCTGATAAAGGGCATCTACGAAAAACCTACAGCNAACATCATACTTAATGGTGAAANACTGAANGCTTTCCCCCTAAGATCGGGAACAAGACAAGGATGTCCGCTNTCACCACTTCTATTCAACATTGTACTGGAGGTCCTAGCCAGTGCAATAAGGCAAGAAAAAGAAATAAAAGGCATAAAGATTGGAAAGGAAGAAATAAAACTGTCNTTATTCGCAGATGACATGATTGTNTACGTAGAAAATCCNAAAGAATCTACAAANAAACTACTAGAACTAATAAGTGAATTTAGCAAGGTCGCNGGATACAAGGTCAATATACAAAAATCAATTGTATTTCTATATACTAGCAACAAACAATTGGAAAATGAAATTTNAAAAACAATACCATTTACAATAGCATCAAAAAACATNAAATACTTAGGAATAAATCTAACAAAANATGTGCAAGACCTNTACACTGAAAACTACAAAACATTGCTGAGAGAAATTAAAGAAGACCTAAATAAATGGAGAGATATACCATGTTCATGGATTGGAAGACTCAATATTGTNAAGATGTCAATTCTCCCCAAATTGATCTATAGATTCAATGCAATCCCAATCAAAATCCCAGCAGGTTTTTTTGTAGAAATTGACAAGCTGATTCTAAAATTTATATGGAAATGCAAAGGACCNAGAATAGCCAAAACAATCTTGAAAAAGAAGAACAAAGTTGGAGGACTTACACTACCNGATNTCAAGACTTATTATAAAGCTACAGTAATCAAGACAGTGTGGTATTGGCGTAAGGATAGACAAATAGATCAATGGAACAGAATAGAGAGTCCAGAAATAGACCCACACATATATGGNCANTTGATTTTTGACAAAGGTGCCAANGCAATTCAGTGGGGAAAGGATAGTCTTTTCAACAAATGGTGCTGGAACAATTGGATATCCATATGGAAAAAAATGAANCTCGACCCCTACCTCACACCATACACAAAAATTAATTCNAGATGGATCATAGACCTAAATGTAAAAGNTAAAACTATAAAACTTCTAGAAGAAAACATAGGAGAATATCTTCGTGACCTTGGGNTAGGCAAAGATTTCTTAAACAGGACACAAAAAGCACNAACCATAAAAGAAAAAATTGATAAATTGGACTNCATCAAAATTAAAAACTTCTGCTCNTCAAAAGACACCGTTAAGAAAATGAAAAGGCAAGCCACAGANTGGGAGAAAATATTTGCAANACATATATCTGACAAAGGACTCGTATCCAGAATATATAAAGAACTCCTACAANTCAATAANAAAAAGACAAACAACCCAATANAAAAATGGGCAAAAGACTTGAACAGACACTTCACAAAAGAAGATATNCAAATGGCCAATAAGCACATGAAAAGATGCTCAACNTCA
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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 |
|---|---|---|---|---|---|---|
| L1M5_orf2 | ttk | 1224 | 1232 | + | 14.97 | AAGGATAAT |
| L1M5_orf2 | ttk | 1668 | 1676 | + | 14.97 | AAGGATAAT |
| L1M5_orf2 | KAN2 | 1234 | 1243 | - | 14.94 | AATATTCTCT |
| L1M5_orf2 | DOF4.2 | 3187 | 3197 | + | 14.89 | AAAAAGACAAA |
| L1M5_orf2 | DOF5.1 | 1021 | 1039 | + | 14.83 | ATAAAGATAAGAGCAGAAA |
| L1M5_orf2 | PHOX2A | 29 | 39 | - | 14.82 | TAATGTAATTA |
| L1M5_orf2 | Esrrg | 2958 | 2966 | - | 14.81 | CCAAGGTCA |
| L1M5_orf2 | ZNF211 | 183 | 192 | + | 14.80 | GATATACCAT |
| L1M5_orf2 | ZNF211 | 2401 | 2410 | + | 14.80 | GATATACCAT |
| L1M5_orf2 | ERR | 2193 | 2200 | + | 14.77 | CAAGGTCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
