RetrogeneDB ID:

retro_chof_483

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_113487:2971..3955(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MTFR1
Ensembl ID:ENSCHOG00000006664
Aliases:None
Description:mitochondrial fission regulator 1 [Source:HGNC Symbol;Acc:29510]


Retrocopy-Parental alignment summary:






>retro_chof_483
ATGCTTGACTGGATTAAGTGCTTAATTAGGATGGTTTTCAACAAGTTGGAGTGAGCATGTAATCAGTACTTTGGTCTAGG
AAGCCATATGGTTCATTTCAAAGTATTGTAAGGAAAATTGGTTCTAATTTGTCTCTGATTCAGTGTCCAAGAGTTCAGTT
CCAGCTTACCAGCCATACAACAGAATAGAGTCTAACCACCAAGGAGAGGATGCAGTGGCATCTTTTGCTGATATTGGATG
GGTAGCCAAAGAAGATGGAGAGTGTTCAACAAATTAAGGACAGAAGTCAGGTCAAGACAATCCCTTCAGAAAGAACTTCC
TTTCTTTGAGAAGCCCCCAAGCAGGCAGATTTCCTTACCAAACCTGTCTTAAGAAGAGTCTCAACTGAGGACACAACACT
GGCGAATGAGGAAGCACTACAGAAGATCAGTGCTCTTGAAATGACTCACACTCTCAGAGCTCAGACTGCCAAAAATTGTG
ACCCTGCAAGAGCAGCAGAATATCATTGCAGGTGAATTAGATTCTACCACATCTGTTACCACAGCACTACCCTCCATCCC
ACCACCTCCACCACCAACTGCCCTCCCTGCAACAGAGCTCTACCAAAATACATCTGCTATTGATCTGATTAAAAAGCAAA
GAGTGAAAAAAGCTAATTGCTGAAAAGACGAGTCCAAAGAAACCTGACATGCCAAATATGGGTAGAAATCCTTAAAGATA
GGAACAGTGTAAAACCTCAGTCCATTAAAAAGTCAGAGCAAGATGTAAAGCCCAAACTAGTGGACCCTACAGACCCCGCT
GCCCTCATTGCAGGAGCTCTGAAAATGAAAGTTGTTCATTGGTTCAAAGCAATAGCCAAAGTGAAGTTGAAAAGTAATTC
CAAAATCAGAATCAGAGACCAAATCAGGAATGGTATTGTTTGGGCCACACAGGTTGAAGTCTATAGGAAAAATGAAGTCT
TTAATTGAAAATGGTTCAACTTCC

ORF - retro_chof_483 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.9 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 9


Retrocopy - Parental Gene Alignment:

ParentalMLDWIKRLIRMVF-QQVGVSMQSVLWSGKPYGSSRSIVRKIGTNLSLIQCPRVQFQLTSHATEWS-PDHQ
MLDWIK.LIRMVF.QQVGVSM.SVLWS.KPYGS..SIVRKIG.NLSLIQCPRVQFQLTSH.TE.S...HQ
RetrocopyMLDWIKCLIRMVF<QQVGVSM*SVLWSRKPYGSFQSIVRKIGSNLSLIQCPRVQFQLTSHTTE*S<SNHQ
ParentalEEDRVASFADVGWVAKEGGECST-RLRTEVRSRQPLQEDLPFFEKPPSRRISLSNLSQEEPQLRT-TALA
.ED.VASFAD.GWVAKE.GECST..LRTEVRSRQ.LQ..LPFFEKPPSR.ISL.NLS.EE.QLRT.T.LA
RetrocopyGEDAVASFADIGWVAKEDGECST<KLRTEVRSRQSLQKELPFFEKPPSRQISLPNLS*EESQLRT<TTLA
ParentalNEEALQKISALENELATLRAQIA-KIVTLQEQQNLIAGDLASTTSVTTALPCVPPPPPPPPPPLPATGLH
NEEALQKISALE....TLRAQ.A.KIVTLQEQQN.IAG.L.STTSVTTALP....PPPPPP..LPAT.L.
RetrocopyNEEALQKISALE-MTHTLRAQTA>KIVTLQEQQNIIAGELDSTTSVTTALPSI--PPPPPPTALPATELY
ParentalQSTSAIDLIKERREKKAS-AGKINPKKPDMPNM-LEILKDMNSVKLRSVKRSEQDVKPKPVDPADPDSTT
Q.TSAIDLIK..R.KKA..A.K..PKKPDMPNM..EILKD.NSVK..S.K.SEQDVKPK.VDP.DP....
RetrocopyQNTSAIDLIKKQRVKKAN>AEKTSPKKPDMPNM>VEILKDRNSVKPQSIKKSEQDVKPKLVDPTDPAALI
ParentalLEPLKKKFAHRY-LSDSQNEAE-KVVPKSESETTSGTMLFGPHMLKSTGRMKSLIENVSDS
...LK.K..H....S.SQ.E.E.KV.PKSESET.SG..LFGPH.LKS.G.MKSLIEN.S.S
RetrocopyAGALKMKVVHWF<QSNSQSEVE<KVIPKSESETKSGMVLFGPHRLKSIGKMKSLIENGSTS

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_483 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 10 parental genes, and 13 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000122811 retrocopy
Choloepus hoffmanni ENSCHOG00000006664 3 retrocopies
retro_chof_1268, retro_chof_2700, retro_chof_483 ,
Dipodomys ordii ENSDORG000000163221 retrocopy
Homo sapiens ENSG000000668551 retrocopy
Macaca mulatta ENSMMUG000000112631 retrocopy
Mustela putorius furoENSMPUG000000099092 retrocopies
Oryctolagus cuniculus ENSOCUG000000081651 retrocopy
Pongo abelii ENSPPYG000000186311 retrocopy
Rattus norvegicus ENSRNOG000000213591 retrocopy
Tarsius syrichta ENSTSYG000000101021 retrocopy



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