RetrogeneDB ID:

retro_chof_602

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_125747:3459..4097(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TADA1
Ensembl ID:ENSCHOG00000012658
Aliases:None
Description:transcriptional adaptor 1 [Source:HGNC Symbol;Acc:30631]


Retrocopy-Parental alignment summary:






>retro_chof_602
TACTGAGCTAACCTAAAGTTGTAGTTTAAGCAGAAGATCAGCAAAGAAGAGTTTGACCTTGAAACTCATAGACTTACCAC
ACTGGATAATGTCCATTTCCACAATGATTTCCTCCTGGCTATTCGCACATGTTGTCAGATCTTGGTTTCAACACTAGAGG
GTGCTGGATCTTTACCCTGGACAGGAGATTCTGCAGCCAAAACTGGGAAACCCAAGGGAAAGAGAAAGTTTTCTTCAGTT
CATCAGAAATTTGATCATAGATTTCAGCCTCAAAATCCCCTCTCAGGAGCCCAGCAGTTTGTGGCAAAGGATCCTCAAGT
TGATGATGACTTGAAACTTTGTTCCCATACAATGGTGCTTCCCACTCATGTCAGCTTTGAGGGAGAATGATAGTGGCTGC
TTATGAGCACGGGCTGGACAATGTCACCAAGGAGGCTCTCTCAGCTGTTGTCCACACAGTAGAGGATTACGTTAAAGATA
TTCTGACATCGGTTGTGCCAAGAAGGAAAGTTTATCAATTATGAGATGGTTGTTTTAAATATGCTTTTAGTAGTAATGTG
ATCCCTCAGCCATATCTGAATAGTGTAGTATTACAACAATTTAATAGAAAGCCCTCCAGCCTTTTCAGCTCCCTCTGC

ORF - retro_chof_602 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.88 %
Parental protein coverage: 70.43 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalYWVNLKLWFKQKISKEEFDLEAHRLLTQDNVHSHNDFLLAILTRCQILVTP--GAGSLPWTGGSAAKPGK
Y..NLKL.FKQKISKEEFDLE.HRL.T.DNVH.HNDFLLAI.T.CQILV....GAGSLPWTG.SAAK.GK
RetrocopyY*ANLKL*FKQKISKEEFDLETHRLTTLDNVHFHNDFLLAIRTCCQILVSTLEGAGSLPWTGDSAAKTGK
ParentalPKGKKKLSSVRQKFDHRFQPQNPLSGAQQFVAKDPQDDDDLKLCSHTMMLPTR-GQLEGRMIVTAYEHGL
PKGK.K.SSV.QKFDHRFQPQNPLSGAQQFVAKDPQ.DDDLKLCSHTM.LPT...QL.GRMIV.AYEHGL
RetrocopyPKGKRKFSSVHQKFDHRFQPQNPLSGAQQFVAKDPQVDDDLKLCSHTMVLPTH<CQL*GRMIVAAYEHGL
ParentalDNVTEEAVSAVVYAVENHLKDILTSVVSRRKAYRLRDGHFKYAFGNNVTPQPYLKNSVVAYNSLIESPPA
DNVT.EA.SAVV..VE...KDILTSVV.RRK.Y.L.DG.FKYAF..NV.PQPYL.NSVV...........
RetrocopyDNVTKEALSAVVHTVEDYVKDILTSVVPRRKVYQL*DGCFKYAFSSNVIPQPYL-NSVVLQQFNRKPSSL
ParentalFSAPC
FS..C
RetrocopyFSSLC

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_602 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 11 parental genes, and 11 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000156071 retrocopy
Choloepus hoffmanni ENSCHOG00000012658 1 retrocopy
retro_chof_602 ,
Cavia porcellus ENSCPOG000000255981 retrocopy
Dasypus novemcinctus ENSDNOG000000186061 retrocopy
Homo sapiens ENSG000001523821 retrocopy
Gorilla gorilla ENSGGOG000000081681 retrocopy
Mus musculus ENSMUSG000000265631 retrocopy
Otolemur garnettii ENSOGAG000000076211 retrocopy
Pongo abelii ENSPPYG000000005571 retrocopy
Pan troglodytes ENSPTRG000000016271 retrocopy
Tupaia belangeri ENSTBEG000000072831 retrocopy



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