RetrogeneDB ID: | retro_chof_55 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_9833:12973..14407(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCHOG00000004561 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KCNS3 | ||
| Ensembl ID: | ENSCHOG00000009105 | ||
| Aliases: | None | ||
| Description: | potassium voltage-gated channel, delayed-rectifier, subfamily S, member 3 [Source:HGNC Symbol;Acc:6302] |
Retrocopy-Parental alignment summary:
>retro_chof_55
ATGACCCACCAGAGCCTGTGGGACCTGTCGGAGGCCAACGTCGAGGATGGAGAGATCCGCATCAACGTGGGCGGCTTCAA
GAGGCGGCTGCGCTCGCACACGCTGCTGCGCTTCCCCGAGACGCGCCTGGGCCGCCTGCTGCTCTGCCACTCGCGCGAGG
CCATCCTGGAGCTCTGCGATGACTACGACGACGTCCAGCGTGAGTTCTACTTCGACCGCAACCCGGAGCTCTTCCCCTAC
GTGCTGCATTTCTACCACACCGGCAAGCTTCACGTCATGGCCGAGCTGTGCGTCTTCTCCTTCAGCCAGGAAATTGAGTA
CTGGGGCATCAATGAATTCTTCATCGACTCCTGCTGCAGCTACAGCTACCACGGCCGCAAAGTGGAGCCTGAGCAGGAGA
AGTGGGACGAGCAGAGCGACCAGGAGAGCACCACGTCCTCCTTCGACGAGATCCTCGCCTTCTATAACGACGCCTCCAAG
TTCGATGGGCAGCCCCTGGGCAACTTCCGAAGACAGCTGTGGCTGGCTCTGGACAACCCCGGCTACTCCGTCCTGAGCAG
GGTCTTCAGCATCCTGTCCATCCTCGTGGTGTTGGGGTCCATCATCACCATGTGCCTCAATAGCCTACCAGACTTCCAAA
TCCCTGACAGCCAGGGCAACCCTGCCGAGGACCCCAGGTTTGAAATCGTGGAGCACTTTGGCATCGCATGGTTCACGTTT
GAGCTGGTTGCTAGGTTTGCTGTGGCACCTGACTTCCTCAAGTTTTTCAAGAATGCCCTAAACCTTATCGACCTCATATC
CATTGTCCCTTTTTACATCACTCTGGTGGTGAACCTCGTGGTGGAGAGCACGCCTACCCTGGCCCATCTGGGCAGAGTGT
CCCAGGTCCTGAGGCTGATGCGGATTTTCCGCATCTTAAAGCTGGCCAGACACTACACTGGCCTCCGCTCCCTGGGAGCC
ACCTTGAAGTACAGTTACAAAGAAGTAGGGCTGCTCCTGCTCTACCTCTCCGTGGGCATTTCCATCTTCTCTGTGGTGGC
CTACACCATTGAAAAGGAAGAGAATGAGGGCCTGGCCACCATACCTGCTGGCTGGTGGTGGGCCACTGTCAGTATGACCA
CTGTGGGGTATGGAGATGTGGTCCCAGGGACCACAGCAGGGAAGCTGACTGCTTCTGCCTGCATCCTGGCAGGTATCCTA
GTGGTGGTTCTGCCCATCACCTTGATCTTCAATAAGTTCTCCCACTTCTATCGGCGCCAAAAGCAACTCGAGAGTGCCAT
GCGCAGCTGTGACTTTGGGGATGGTATGAAGGAGGTCCCTTCCATCAATTTAAGGGATTACTATGCCCATAAAGTTAAAT
CCCTCATGGCAAGCCTGACGAACATGAGCAGGAGTTCCCCAAGCGAACTAAGTTTAAATGATTCCCTACATTAG
ORF - retro_chof_55 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 55.73 % |
| Parental protein coverage: | 90.02 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VNLNVGGFKQSVDQSTLLRFPHTRLGRLLSCRSEEAILELCDDYSVADREYYFDRNPSLFRYVLNFYYTG |
| ...NVGGFK......TLLRFP.TRLGRLL.C.S.EAILELCDDY....RE.YFDRNP.LF.YVL.FY.TG | |
| Retrocopy | IRINVGGFKRRLRSHTLLRFPETRLGRLLLCHSREAILELCDDYDDVQREFYFDRNPELFPYVLHFYHTG |
| Parental | KLHVMEELCVFSFCQEIEYWGINEFSLDACCSSRYQERKEEGRGKAWEQKSHGASTESSFEDSSLFEKEL |
| KLHVM.ELCVFSF.QEIEYWGINEF..D.CCS..Y..RK.E.....W...S...ST.SSF.....F.... | |
| Retrocopy | KLHVMAELCVFSFSQEIEYWGINEFFIDSCCSYSYHGRKVEPEQEKWDEQSDQESTTSSFDEILAFYNDA |
| Parental | EKFDRLWFGQLRRKVWIRMENPAHCLSAKLIAISSLSVVLASIVAMCVHSMSEFQNEDGE---VDDPVLE |
| .KFD....G..RR..W....NP..........I.S..VVL.SI..MC..S...FQ..D.......DP..E | |
| Retrocopy | SKFDGQPLGNFRRQLWLALDNPGYSVLSRVFSILSILVVLGSIITMCLNSLPDFQIPDSQGNPAEDPRFE |
| Parental | GVEIACIAWFTGELAVRLGAAPCQKRFWTNPLNIIDFVSIVPFYATLAVDTKEEESEDIENMGKVVQILR |
| .VE...IAWFT.EL..R...AP....F..N.LN.ID..SIVPFY.TL.V....E........G.V.Q.LR | |
| Retrocopy | IVEHFGIAWFTFELVARFAVAPDFLKFFKNALNLIDLISIVPFYITLVVNLVVESTPTLAHLGRVSQVLR |
| Parental | LMRIFRILKLARHSVGLRSLGATLRHSYHEVGLLLLFLSVGISIFSVLIFSVEKDEPTAGLTSIPICWWW |
| LMRIFRILKLARH..GLRSLGATL..SY.EVGLLLL.LSVGISIFSV.....EK.E...GL..IP..WWW | |
| Retrocopy | LMRIFRILKLARHYTGLRSLGATLKYSYKEVGLLLLYLSVGISIFSVVAYTIEKEE-NEGLATIPAGWWW |
| Parental | ATISMTTVGYGDTHPVTLAGKLIASTCIICGILVVALPITIIFNKFSKYYQKQKDIDVDQGGEDPPEKCH |
| AT.SMTTVGYGD..P.T.AGKL.AS.CI..GILVV.LPIT.IFNKFS..Y..QK.........D...... | |
| Retrocopy | ATVSMTTVGYGDVVPGTTAGKLTASACILAGILVVVLPITLIFNKFSHFYRRQKQLESAMRSCDFGDGMK |
| Parental | ELPYFNIRDIYAQRVHAFLASLTSV |
| E.P..N.RD.YA..V....ASLT.. | |
| Retrocopy | EVPSINLRDYYAHKVKSLMASLTNM |
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_55 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 | ENSCHOG00000009105 | 1 retrocopy |
retro_chof_55 ,
|