RetrogeneDB ID: | retro_chof_2508 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_81129:5572..6460(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ADD1 | ||
| Ensembl ID: | ENSCHOG00000004864 | ||
| Aliases: | None | ||
| Description: | adducin 1 (alpha) [Source:HGNC Symbol;Acc:243] |
Retrocopy-Parental alignment summary:
>retro_chof_2508
CTTGGTATGGTGACTCCTCTGAATGACTTTAGAGGATCTGATTCAATTGCATATGATAAAGGGGAAAATTATTGCAATAT
AAATTAGCAGCCTTTTACAGATTAGTGGATCTTTTTGGGTGGTTTTAGCTTATTTATAATTATATCACAAGCCAAGTGAA
CTCTGAGCAGGGGCACTTGCTCATTGTACACTTTGGACTTCATAGTGAAGTGACTGCATCCAGTTTGGTTAAAATCAACT
TGCAAGGAGATGTTGTAGATCATGGAAGTACAAGTCTAGGAGTAAATCAATCTGGCGTCATGTTGCATTCTGCAATCTGT
GCTGCCTGACCGGACATTAAATGTATTCTTCATACTCACAGGCCAGCAGGCACAGTGGTTTCTGCAGTAAAGTGTGGCCT
CTTGCCCATCTCACAGGAGGCATTTTCCCTGGGAGAACTGGCTTATCATGACTATCATAGGATTCCAATCGATGAAGAGG
ACAAAGTTTTGATTCAGAAAAATTTGGGACCTAAAAGCAAACGTCATATTCTCCAAAATCATGGACTCCTATCAGTTGGT
GAGACTGTTGAGGAGGCTTTCTATTATATCTATAACCTTGTGGTTGTGTGTGAGATCCAGTTTCACACTCTGGCCAGAGT
GGGAGGGCCAGACAACTTAGTCCTGCTGGATCCCAGCAAGTACAAAGCCAAGTCCCATGTCCTGAGTCTCCAGCAGGGGA
AGGGACCAGATGTCTCCCAAGATGCAGATTGGGGAGCAGGAGTTGAAATCCTCATGCAGATGCTGACAGTCTGGGTTACG
GAACTGGCCTCCCTTATCAATACCTGCTCTGGAGGAGAAATCTAAAAAGTACAGCGATGTGGAGGCTTCTGCTAGTGTTA
CCGGATAC
ORF - retro_chof_2508 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 77.05 % |
| Parental protein coverage: | 50.08 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 6 |
Retrocopy - Parental Gene Alignment:
| Parental | LGMVTPVNDLRGSDSIAYDKGE-KLLRCKLAAFYRLADLFGWSQLIYNHITTRVNSEQEHFLIVPFGLLY |
| LGMVTP.ND.RGSDSIAYDKGE.KLL..KLAAFYRL.DLFGW..LIYN.IT..VNSEQ.H.LIV.FGL.. | |
| Retrocopy | LGMVTPLNDFRGSDSIAYDKGE<KLLQYKLAAFYRLVDLFGWF*LIYNYITSQVNSEQGHLLIVHFGL-H |
| Parental | SEVTASSLVKINLQGDVVDRGSTNLGVNQAGFTLHSAIYAARPDVRCIVHIHTPAGAAVSAMKCGLLPIS |
| SEVTASSLVKINLQGDVVD.GST.LGVNQ.G..LHSAI.AA.PD..CI.H.H.PAG..VSA.KCGLLPIS | |
| Retrocopy | SEVTASSLVKINLQGDVVDHGSTSLGVNQSGVMLHSAICAA*PDIKCILHTHRPAGTVVSAVKCGLLPIS |
| Parental | PEALSLGELAYHDYHGILVDEEEKVLIQKNLGPKSKVLILRNHGLVSVGETVEEAFYYIHNLVVACEIQV |
| .EA.SLGELAYHDYH.I..DEE.KVLIQKNLGPKSK..IL.NHGL.SVGETVEEAFYYI.NLVV.CEIQ. | |
| Retrocopy | QEAFSLGELAYHDYHRIPIDEEDKVLIQKNLGPKSKRHILQNHGLLSVGETVEEAFYYIYNLVVVCEIQF |
| Parental | RTLASAGGPDNLVLLDPSKYKAKARV-PESPAGEGT-GSPPKWQIGEQEF-EALMRML-DNLGYRTGYPY |
| .TLA..GGPDNLVLLDPSKYKAK..V.PESPAGEGT....PK.QIGEQE..E.LM.ML.D.LGY.TG.PY | |
| Retrocopy | HTLARVGGPDNLVLLDPSKYKAKSHV<PESPAGEGT<QMSPKMQIGEQEL<EILMQML<DSLGYGTGLPY |
| Parental | RY-PALREK-EKYSDVEVPASVTGY |
| .Y.PAL.EK..KYSDVE..ASVTGY | |
| Retrocopy | QY<PALEEKSKKYSDVEASASVTGY |
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_2508 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 | ENSCHOG00000004864 | 1 retrocopy |
retro_chof_2508 ,
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