RetrogeneDB ID:

retro_chof_2392

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_70993:7795..8655(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCHOG00000007548
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_chof_2392
AATGAAGAAGGTTGGAGGAGAGCAGTGTGGGAGAAGAATTTGAAAATGATTGAACTGCACAATCTGGAATACAGCCTGGG
CAATATAGCTTAAAGACCAGAATGAATGCCTTTGGTGACATGACCAATGAAGAATTCAAGCAGGTGATGAATGGCTTTCA
AAACCAGGAACACAAGGAGGGGAAAATGTTCTATAAACTTCCCTCTGAGGTTCACAAATCTGTGGATTGGCATAAGAAAG
ATTACATGTCTCCCGTGAAGAATCAGCATCAGTGTGGTTCTTGTTGGGCTTTCAGTGCAATCGGTTCCCTGGAAGGACAG
ATATTCCAGAAAACTGGCAAACTTGTTTCACTTGGTGAGCAGAACCTGGCAGACTGCTCTCAGGCTGAAGGCAATAACAG
CTGCAATGGCGGCCTAATGGACAATGCTTTCCAGTATGTCCAGGACAACAAAGGCCTTGATTCACAGAAATCCTACCCAT
ATATTGGAAAGTACATGACCTGTTGCTACAAGCCCAAGTATTCTGCTGTCAATGACACTGGCTTTGTGGACATCCCTCCA
TGGGAAAAGGCACTTATGAAGGCAGTGGCAACTATAGGTCCCATCTCAGTTGCTATTGATGCAAGCTATGACTCCTTCAA
GTTCTACTCATCAGGCATTTATTAGCCAGATGGCAGCAGTAAAGACCTAGATCATGGTGTCCTGGTGGTCAACTGTGGCT
TTGAAGAAACAGATTCAGATAACAATAAATACTGGCTTGTGAGGAACAGCTGGGGTGAAGATTGGGGCATGGAGGGCAAA
ATAAAGATGGCCAGAGACCAGAACGACCGCTGTGGAGTTGCCACCTCAGCCAGCTATCCC

ORF - retro_chof_2392 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.09 %
Parental protein coverage: 91.72 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalSEEDWRRAVWEKNMKIIEVHNQEYSLG-QHSFKLGMNAFGDMTSEEFRQVMNGFQNKEHKKGEMFSESPS
.EE.WRRAVWEKN.K.IE.HN.EYSLG.Q.S.K..MNAFGDMT.EEF.QVMNGFQN.EHK.G.MF...PS
RetrocopyNEEGWRRAVWEKNLKMIELHNLEYSLG<QYSLKTRMNAFGDMTNEEFKQVMNGFQNQEHKEGKMFYKLPS
ParentalEVPTSVDWRDKGYVTPVKNQGHCGSCWAFSAAGSLEGQMFRKTGILVSLSEQNLVDCSRAEGNSGCNGGL
EV..SVDW..K.Y..PVKNQ..CGSCWAFSA.GSLEGQ.F.KTG.LVSL.EQNL.DCS.AEGN..CNGGL
RetrocopyEVHKSVDWHKKDYMSPVKNQHQCGSCWAFSAIGSLEGQIFQKTGKLVSLGEQNLADCSQAEGNNSCNGGL
ParentalMDNAFQYVQDNKGLDSEESYPYVGKDMNCSYKPEYSAANDTGFVEVAPLEKTLMAAVAAVGPISVAIDAS
MDNAFQYVQDNKGLDS..SYPY.GK.M.C.YKP.YSA.NDTGFV...P.EK.LM.AVA..GPISVAIDAS
RetrocopyMDNAFQYVQDNKGLDSQKSYPYIGKYMTCCYKPKYSAVNDTGFVDIPPWEKALMKAVATIGPISVAIDAS
ParentalHESFQFYESGIYYEPDCSSKDLDHGVLVVGYGFEETDSDNNKYWLVKNSWGESWGMEGYVKMARDRDNHC
..SF.FY.SGI.Y.PD.SSKDLDHGVLVV..GFEETDSDNNKYWLV.NSWGE.WGMEG..KMARD....C
RetrocopyYDSFKFYSSGI-Y*PDGSSKDLDHGVLVVNCGFEETDSDNNKYWLVRNSWGEDWGMEGKIKMARDQNDRC
ParentalGIATKASYP
G.AT.ASYP
RetrocopyGVATSASYP

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_2392 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 21 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000007548 8 retrocopies
Dasypus novemcinctus ENSDNOG000000120371 retrocopy
Macropus eugenii ENSMEUG000000021682 retrocopies
Macropus eugenii ENSMEUG000000142931 retrocopy
Macropus eugenii ENSMEUG000000162092 retrocopies
Monodelphis domestica ENSMODG000000028441 retrocopy
Otolemur garnettii ENSOGAG000000013492 retrocopies
Ochotona princeps ENSOPRG000000010302 retrocopies
Petromyzon marinus ENSPMAG000000034531 retrocopy
Tupaia belangeri ENSTBEG000000164061 retrocopy



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