RetrogeneDB ID:

retro_chof_909

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_167362:3..737(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCHOG00000009457
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:ACTL6A
Ensembl ID:ENSCHOG00000009477
Aliases:None
Description:actin-like 6A [Source:HGNC Symbol;Acc:24124]


Retrocopy-Parental alignment summary:






>retro_chof_909
TGCGCTCATTGTCATTCTACTGGGTTGATTTTGGACAGTGGAGTCACTCATACCACTGCAATTCCAGTCCACGATGGCTA
TGTCCTTCAACAAGGCATTGTGAAATACCCTCTTACTGGAGACTTTATTATGAAGTGTGGAGAACTCTTCCAAGAAATGA
ATATAGAATTGATCCCTCCATATATGACTGCATCAAAAGAAGCTGTTCATGAAGGAACTCCAGTAAACTGGAAAAGAAAA
GAGAAGTTGCCACAGGTTACAAGGTCATGGCACAATTATATGTGTAATTGTGTTATCCAGGATTTTCAAGCTTTAGAACT
GCAAGTATCAGATTTCAACTTATGATGAACTAGTAGCTGCACAGATGCTAACTGTTCACTATGAATTTTCCAGTAGCTAT
AACTGTGATTTTGGTGCAGAACAGCTAAGGATTCCTGAAGGATTATTTGACCCTTCCAATATAAAAGGGTTTATCAGGAA
ATACAATGCTAGGAGTCAGTCACGTTGTCACCACAAGTGTTGGTTTTGTGATATTGGTATCAGACCAGGTCTTTATGGCA
GTGTGATAGTGGCAGGAGGAAACACGATAATACAGAGCTTTTCTGACAGGTTGAACAGAGAGCTCTCTCAAAAAACTACC
TCCCCCACCCCGTATGCGGTTGAAACATACAAGTAATACAACAGTTGAACGAAGGTTTAGTTCATGGATTGGTGGCTCCA
TTTTAGCTTCTTTG

ORF - retro_chof_909 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.11 %
Parental protein coverage: 60.85 %
Number of stop codons detected: 0
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalCKTAVLTAFACRTGLIWXXEANVVEFYVLQQGIVKSPLAGDFITMQCRELFQEMNIELIPPYMIASKEAV
C.....T......G........V...YVLQQGIVK.PL.GDFI.M.C.ELFQEMNIELIPPYM.ASKEAV
RetrocopyCAHCHSTGLILDSGVTHTTAIPVHDGYVLQQGIVKYPLTGDFI-MKCGELFQEMNIELIPPYMTASKEAV
ParentalREGSPANWKRKEKLPQVTRSWHNYMCNCVIQDFQASVLQVSD-STYDEQVAAQMPTVHYEFPNGYNCDFG
.EG.P.NWKRKEKLPQVTRSWHNYMCNCVIQDFQA..LQVSD.STYDE.VAAQM.TVHYEF...YNCDFG
RetrocopyHEGTPVNWKRKEKLPQVTRSWHNYMCNCVIQDFQALELQVSD>STYDELVAAQMLTVHYEFSSSYNCDFG
ParentalAERLKIPEGLFDPSNV-KGLSGNTMLGVSHVVTTSVG-MCDIDIRPGLYGSVIVAGGNTLIQSFTDRLNR
AE.L.IPEGLFDPSN..KGLSGNTMLGVSHVVTTSVG..CDI.IRPGLYGSVIVAGGNT.IQSF.DRLNR
RetrocopyAEQLRIPEGLFDPSNI>KGLSGNTMLGVSHVVTTSVG<FCDIGIRPGLYGSVIVAGGNTIIQSFSDRLNR
ParentalELSQKT-PPSMRLKL-IANNTTVERRFSSWIGGSILASL
ELSQKT.PP..R..L....NTTVERRFSSWIGGSILASL
RetrocopyELSQKT>PPPPRMRLKHTSNTTVERRFSSWIGGSILASL

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_909 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 3 parental genes, and 4 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000009477 2 retrocopies
retro_chof_1481, retro_chof_909 ,
Mus musculus ENSMUSG000000276711 retrocopy
Tursiops truncatus ENSTTRG000000089071 retrocopy



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