RetrogeneDB ID:

retro_chof_2426

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_74373:705..1682(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FAM175B
Ensembl ID:ENSCHOG00000007635
Aliases:None
Description:family with sequence similarity 175, member B [Source:HGNC Symbol;Acc:28975]


Retrocopy-Parental alignment summary:






>retro_chof_2426
AAAGTTACTGGTTGGTACAGATTTTGATGAAACGCACAGCAGCAGATGTCGTACAGAGAGCAAGTCATCCACAAGCAGCT
TACCGGATCCTTGGCGTACCTGACCTTATCTTCCTTCTCTACAGCTTCATCTCCACCGCCAACAATTCTACTCATGCTTT
AGAATATGTTCTCTTTAGACCAAATCGAAGGTATAATCAAAGGATATCACTTGCTATTCCCAACCTAGGCAATACTAGCC
AGCAGGAGTACAAAGTGTCTTCAGTGCCAAATACTTCTCAGAGTTATGCCAAAGTTATTAAAGAACATGGTACCAACTTT
TTTGACAAGGATGGAGTAATGAAAGACATCAGGGCCATTTATCAGGTTTGTAACGCACTTCAGGAGAAAGTACAGGCAGT
GTGTGCAGGTGTAGAAAAGAGTGAGCAAGTTGTTGAATCTTGTCAGGCAGAAGTGAACAAATTAAAAAGACAAATCACTC
AAAGGAAAAATGAAAAGGGACAGGAAAGAAGATCGCAGCCGACGATGTTAAGCAGACAGATGCCACCTGAAAGTCTGGAA
CCAGTGTTCAGCCCTCGGATGCCCTATTCCGGGTTTGCAGCTGAAGGTGGAATTACACTTGGAGATGCAGAGGCCACCGA
TCCTCCTCCCCCTTATTCTGATTTTAACCCAAACAATCAAGAAAGTACTTTAAGCCATTCTCACGTGGAAAGTAGCGTCT
TTATGCCTCGACCTCAAGCCGTGGGCTCCTCCAGTGATGCTTCCACCGGTGCTGGACTGAAGCATCCTGGAAGTGGAGCA
GAGCTTCCTCCTTCCCAAAGAGCAGCTGGAGACAGTGTTGATGAATCAGACGACAGCGATTATGAAAATTCGATTAACCC
TACAGAGCCCTCCAATAGTGAATCCTCCCATCCGAGGGATCCACGGCCCACGACACATCCTGATGGAGACTCCAGGAACA
CTCAGGCCTCCCAGATT

ORF - retro_chof_2426 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.83 %
Parental protein coverage: 83.38 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalKVIGWYRFRRNTQQQMSYREQVIHKQLT-RILGVPDLVFLLFSFISTANNSTHALEYVLFRPNRRYNQRI
KV.GWYRF..N.QQQMSYREQVIHKQLT.RILGVPDL.FLL.SFISTANNSTHALEYVLFRPNRRYNQRI
RetrocopyKVTGWYRF**NAQQQMSYREQVIHKQLT<RILGVPDLIFLLYSFISTANNSTHALEYVLFRPNRRYNQRI
ParentalSLAIPNLGNTSQQEYKVSSVPNTSQSYAKVIKEHGTDFFDKDGVMKDIRAIYQVYNALQEKVQAVCADVE
SLAIPNLGNTSQQEYKVSSVPNTSQSYAKVIKEHGT.FFDKDGVMKDIRAIYQV.NALQEKVQAVCA.VE
RetrocopySLAIPNLGNTSQQEYKVSSVPNTSQSYAKVIKEHGTNFFDKDGVMKDIRAIYQVCNALQEKVQAVCAGVE
ParentalKSERVVESCQAEVNKLKRQITQRKNEKEQERRLQQTMLSRQMPPESLEPVFSPRMPYSGFAAEGRITLGD
KSE.VVESCQAEVNKLKRQITQRKNEK.QERR.Q.TMLSRQMPPESLEPVFSPRMPYSGFAAEG.ITLGD
RetrocopyKSEQVVESCQAEVNKLKRQITQRKNEKGQERRSQPTMLSRQMPPESLEPVFSPRMPYSGFAAEGGITLGD
ParentalAEATDPPPPYSDFNPNNQESTLSHSRVESSVFMPRPQAVGSSNYASTSAGLNYPGYGAELSPSQRAAGDS
AEATDPPPPYSDFNPNNQESTLSHS.VESSVFMPRPQAVGSS..AST.AGL..PG.GAEL.PSQRAAGDS
RetrocopyAEATDPPPPYSDFNPNNQESTLSHSHVESSVFMPRPQAVGSSSDASTGAGLKHPGSGAELPPSQRAAGDS
ParentalVDESDNSVYENLIDPTEPSNSESSHPRDSRPTTHSDGHSRNTQASQI
VDESD.S.YEN.I.PTEPSNSESSHPRD.RPTTH.DG.SRNTQASQI
RetrocopyVDESDDSDYENSINPTEPSNSESSHPRDPRPTTHPDGDSRNTQASQI

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_2426 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 4 parental genes, and 6 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000238401 retrocopy
Choloepus hoffmanni ENSCHOG00000007635 3 retrocopies
retro_chof_1691, retro_chof_2426 , retro_chof_2563,
Choloepus hoffmanni ENSCHOG000000132411 retrocopy
Equus caballus ENSECAG000000233401 retrocopy



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