RetrogeneDB ID: | retro_tbel_2534 | ||
Retrocopy location | Organism: | Treeshrew (Tupaia belangeri) | |
| Coordinates: | scaffold_112703:148108..149006(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSTBEG00000015705 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MNS1 | ||
| Ensembl ID: | ENSTBEG00000004372 | ||
| Aliases: | None | ||
| Description: | meiosis-specific nuclear structural 1 [Source:HGNC Symbol;Acc:29636] |
Retrocopy-Parental alignment summary:
>retro_tbel_2534
GAAAACAGTAGCGAGCTCATTGAATTGGAGAAGTTAAAAGCAGCTTCCATAAATAAAGGAAGGGCTGCTCAGATTGCTGA
AAAAGATGCCATTAAATATGAGCAAATGAAACGTGATGCTGAAATAGCCAAAACCATGATGGAAGGGCAGGAGCGAGTAA
TAAGGAAGAGAGTGCCACCGAAGACAGACGGAACGAAGTGAAGGCACAAAACTATTTTGACTTAGAGAAACACGTTGAAG
AGCCAGAGAGGAAAGAGCAGGAAGCTTATGAACAGTTGTTGAAAGAAAAACTCATGACTGATGAAATCGCTAGGAAAATC
TATGAAGAAGATCAACTAGAAAAACAACACAAATTAGAAAAAATGAATGCCACTCGAAGGTATATAGAGGAGTTTCAGAA
AGAGCAGGCTCTCTGGAGAAAGAAGAAACGTGAGGAGATGGAAGAAGAGAACAGAAGAATCATAGAATTTGCCCACCAGC
AGCAAAGAGAAGAAAACCGGATGGCAAAAATTCAAGAAAATGAAGAAAAAAGACGCCAGCTTCAGGATGCGCTGGCTCAG
AAATTGGAAGAAATGCTGCGGCAACGTGACGATCTGGAACAAGTACGGCAGGAATTACATCAGGAGGAACAAGCTCAGCT
ACACGCCAGAAAACTAAAAGAAGAAGCAGAAGAGAAACTGAGAAAGCAAAAAGAGATGAAGCAAGATTTTGAAGAACAAA
TGGCCTTGAAGGAACTAGTACTGCAGGCTGCAAAAGAGGAAGAGGAGATGTTCACGAAAACGATGCTAGCTAGATCGAAT
AGAATTGATGAATGCTCAGAAACAATGAAGCAACTGGAACACAGGAGGGCTGTGGAAAAACTTATTGAAGATCGGGCAAC
CAGTTCCTTGAAGACAAA
ORF - retro_tbel_2534 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.97 % |
| Parental protein coverage: | 62.86 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | ENSIELRELEKKLKAAYMNKERAAQIAEKDAIKYEQMKRDAEIAKTMMEEQERVI-KEESAAEDKRNKVK |
| ENS.EL.ELEK.LKAA..NK.RAAQIAEKDAIKYEQMKRDAEIAKTMME.QERVI.KEESA.ED.RN.VK | |
| Retrocopy | ENSSELIELEK-LKAASINKGRAAQIAEKDAIKYEQMKRDAEIAKTMMEGQERVI<KEESATEDRRNEVK |
| Parental | AQYYFDLEKQVEEQERKKQEAYEQLLKEKLMIDEIVRKIYEEDQLEKQHKLEKMNATRRYIEEFQKEQAL |
| AQ.YFDLEK.VEE.ERK.QEAYEQLLKEKLM.DEI.RKIYEEDQLEKQHKLEKMNATRRYIEEFQKEQAL | |
| Retrocopy | AQNYFDLEKHVEEPERKEQEAYEQLLKEKLMTDEIARKIYEEDQLEKQHKLEKMNATRRYIEEFQKEQAL |
| Parental | WRKKKREEMEEENRKIIEFAHIQQQREENRMAKIQENEEKRRQLQDALAQKLEEILRQRDDLEQVRQELY |
| WRKKKREEMEEENR.IIEFAH.QQ.................RQLQDALAQKLEE.LRQRDDLEQVRQEL. | |
| Retrocopy | WRKKKREEMEEENRRIIEFAH-QQXXXXXXXXXXXXXXXXXRQLQDALAQKLEEMLRQRDDLEQVRQELH |
| Parental | QEEQAELHARKLKEEAEEKLRKQKEMKQDFEEQMALKELVLQATKEEEEIFRKTMLAKLAEDDRIELMNA |
| QEEQA.LHARKLKEEAEEKLRKQKEMKQDFEEQMALKELVLQA.KEEEE.F.KTM...LA...RI..... | |
| Retrocopy | QEEQAQLHARKLKEEAEEKLRKQKEMKQDFEEQMALKELVLQAAKEEEEMFTKTM---LARSNRIDECS- |
| Parental | QKQRMKQLEHRRAVEKLIEDRR-NQFLEDK |
| ....MKQLEHRRAVEKLIEDR..NQFLEDK | |
| Retrocopy | --ETMKQLEHRRAVEKLIEDRA<NQFLEDK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Tupaia belangeri was not studied using RNA-Seq expression data.
Tupaia belangeri was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_tbel_2534 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_2534 was not experimentally validated.
Retrocopy orthology:
Tupaia belangeri does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 2 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000016053 | 1 retrocopy | |
| Tupaia belangeri | ENSTBEG00000004372 | 3 retrocopies |
retro_tbel_1821, retro_tbel_2477, retro_tbel_2534 ,
|