RetrogeneDB ID: | retro_chof_879 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_160435:1628..2267(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | WDFY2 | ||
| Ensembl ID: | ENSCHOG00000010470 | ||
| Aliases: | None | ||
| Description: | WD repeat and FYVE domain containing 2 [Source:HGNC Symbol;Acc:20482] |
Retrocopy-Parental alignment summary:
>retro_chof_879
GACAACTGTACCCTGGTCACAACATTCAGAAGACATACAGCCACCTGCACCCAAGCCACATCTGGGCCTGGTGGGGTGAC
TGCTGTCTGTTGGGACCTCATCCAGCCAGCATTGTTCCCAGACAGTTTAGGCCACTCTGTTATCATGCAGGATGTCAGTG
GGAGAAAAGGAACAGCCATCGAGCTCCAAGGACAGAATGATAAAGTCCGCACATTGTTGTCTTTGCCAGCACATACAGCA
GCTCATCTCATGGGGCGAGGACAGTGGGACTTTAGTCTTGAAAAAAGACATGGAGAGGCAGGAGATCCCTGAATATTTGG
ACAGTGATTCCTGTCAAAAGTGTGATCAGACTCTCTTCTGGAACTTCAAGCACATGTGAGACAGTAAGAAAACTGGCCTA
AGACGGCACAACTGCCACAAGAGTGGGAAGGCTGTGTGCGGCAAGCATAGCTCCAAGCAGTCCTCCATCCTGCTGATGGG
CTTCTAGTTTGAAGTGAGGGTCTGTGACAGCTGCCACGAGGCTGTCACAGATAAAGAACGTGCACCTCCAGCTACCTCTC
ATGACAGTAAACATAACATTGAACATGTGCACTTTAATGCAATCAGAGAGTGGTTACTGACTCTGGAACTGAGAATGTT
ORF - retro_chof_879 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.76 % |
| Parental protein coverage: | 55.24 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | DHSGQVTILKLEQDSCTLVTAFRGHTGGVTALCWDPAQRVLFSGSSDHSVIMWDIGGRKGTAIELQGHND |
| D....VT........CT..T......GGVTA.CWD..Q..LF..S..HSVIM.D..GRKGTAIELQG.ND | |
| Retrocopy | DNCTLVTTFRRHTATCTQATS---GPGGVTAVCWDLIQPALFPDSLGHSVIMQDVSGRKGTAIELQGQND |
| Parental | RVQAL-SYAQHTRQLISCGGDGGIVVWNMDVERQETPEWLDSDSCQKCDQPFFWNFKQMWDSKKIGLRQH |
| .V..L....QH..QLIS.G.D.G..V...D.ERQE.PE.LDSDSCQKCDQ..FWNFK.M.DSKK.GLR.H | |
| Retrocopy | KVRTL>CLCQHIQQLISWGEDSGTLVLKKDMERQEIPEYLDSDSCQKCDQTLFWNFKHM*DSKKTGLRRH |
| Parental | HCRKCGKAVCGKCSSKRSCIPLMGFEFEVRVCDSCHEAITDEERAPTATFHDSKHNIVHVHFDATRGRLL |
| .C.K.GKAVCGK.SSK.S.I.LMGF.FEVRVCDSCHEA.TD.ERAP.AT.HDSKHNI.HVHF.A.R..LL | |
| Retrocopy | NCHKSGKAVCGKHSSKQSSILLMGF*FEVRVCDSCHEAVTDKERAPPATSHDSKHNIEHVHFNAIREWLL |
| Parental | T-SGTDKV |
| T.SGT..V | |
| Retrocopy | T<SGTENV |
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_879 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 | ENSCHOG00000010470 | 1 retrocopy |
retro_chof_879 ,
|