RetrogeneDB ID: | retro_chof_278 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | GeneScaffold_6108:12409..13198(+) | ||
| Located in intron of: | ENSCHOG00000011884 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SNTB1 | ||
| Ensembl ID: | ENSCHOG00000007627 | ||
| Aliases: | None | ||
| Description: | syntrophin, beta 1 (dystrophin-associated protein A1, 59kDa, basic component 1) [Source:HGNC Symbol;Acc:11168] |
Retrocopy-Parental alignment summary:
>retro_chof_278
ACCTTGATCCTGCGCTGCAAGGATACAGCCACAGCACACTCCTGGTTCGTAGCTATCCACACCAACATAATGGCTCTCCT
CCCACAGGTGTTGGCTGAACTCAATGCCATACTTGGTGCAACCAGTGCGGCAGGAGGCAGTAAGGAGGTCAGGCACATTG
CCTGGCTGGCAGAACAGGCAAAACTAGATGGTGGAAGACAACAATGGAGACCTGTCCTCATGGCTGTGACTGAGAAGGAT
TTGCTGCTTTATGACTGTATGCCATGGACAAGGGATGCTTGGGCATCACCATGTCATAGCTACCCTCTTGTTGCCACAAG
GTTGGTTCATTCTGGTTCCGGATGTCGATCACCTTCACTTGGATCTGATCTTACATTTGCTACCAGGACAGGCTCTCGGC
AGGGCATTGAAATGCATCGTTTCAGGGTGGAGACACATTGGGATCTGTCAACTTGGACCAGGATACTTGTTCAAGGTTGT
CACGCTGCTGCTGAGCTGATCAAGGAAGTCTCTCTAGGGTGCACATTAAATGGCCAAGAGGTAAGACTCACTGTTCACTA
TGAAAATGGATTCACTATCTCCAGGGAAAATGGAGGCTCCAGCAGCATATTGTACTGCTACCCCTTTGAAGGGCTGAAAA
TGTCTGCTGATGATGGCATCAGAAATCTGTATCTGGATTTTGGTGGTCGTGAGGGAGAACTGACCATGGACCTACACTCT
TGTCCAAAGCCGATTGTATTTGTGTTGCACACGTTCTTGTCAGCCAAAGTCACTCGCATGGGACTGCTT
ORF - retro_chof_278 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 58.87 % |
| Parental protein coverage: | 75.79 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | TVILRSKDSATAQAWFSAIHANVSDLLSRVIAEVREQLGKTDIAG-SREIRHLGWLAEKVPGES-EKQWK |
| T.ILR.KD.ATA..WF.AIH.N...LL..V.AE....LG.T..AG.S.E.RH..WLAE.........QW. | |
| Retrocopy | TLILRCKDTATAHSWFVAIHTNIMALLPQVLAELNAILGATSAAGGSKEVRHIAWLAEQAKLDGGRQQWR |
| Parental | PALVVLTEKDLLIYDSMPRRKEAWLSPVHTYPLLATRLVHSGPGKGSPQAGMDLSFATRTGTRQGIETHI |
| P.L...TEKDLL.YD.MP....AW.SP.H.YPL.ATRLVHSG.G..SP..G.DL.FATRTG.RQGIE.H. | |
| Retrocopy | PVLMAVTEKDLLLYDCMPWTRDAWASPCHSYPLVATRLVHSGSGCRSPSLGSDLTFATRTGSRQGIEMHR |
| Parental | FRAEISRDLSHWTRSIVQGCHNSAELITEITAACTYKNQECRLTIHYENGFSITTEPQEGAFPKTIIQSP |
| FR.E...DLS.WTR..VQGCH..AELI.E....CT...QE.RLT.HYENGF.I..E...G.........P | |
| Retrocopy | FRVETHWDLSTWTRILVQGCHAAAELIKEVSLGCTLNGQEVRLTVHYENGFTISRE--NGGSSSILYCYP |
| Parental | YEKLKMSSDDGIRMLCLDFGGKDGEIQLDLHSCPKPIVFIIHSFLSAKITRLGLV |
| .E.LKMS.DDGIR.L.LDFGG..GE...DLHSCPKPIVF..H.FLSAK.TR.GL. | |
| Retrocopy | FEGLKMSADDGIRNLYLDFGGREGELTMDLHSCPKPIVFVLHTFLSAKVTRMGLL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_278 was not experimentally validated.
Retrocopy orthology:
Choloepus hoffmanni 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000007627 | 1 retrocopy |
retro_chof_278 ,
|