RetrogeneDB ID:

retro_chof_2087

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_48178:6048..6481(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FUNDC2
Ensembl ID:ENSCHOG00000004306
Aliases:None
Description:FUN14 domain containing 2 [Source:HGNC Symbol;Acc:24925]


Retrocopy-Parental alignment summary:






>retro_chof_2087
AACTTTGAGGGAAATTTTGACTCACTGGACCTTGCAGAATTAGCTAAGAAGCAGCCATGGTGGCGCAAGCTCTTTGGGCA
GGAATCTGGGCCCTCTGCTGAAAAGCATAGCGTGGCAACCCAGCTGTTAATTGGAGGCGTTACTGGATGGTGCACAGGTT
TCATATTCCAGAAAGTTGGAAAGTTGGCTGCAACAGCTGTGGGAGGTGGATTTTTTTCTCCTTCAGCTTGCAAACCATAC
TGGGTACATCAAAGTTGACTGGCAGCGAGTAGAGAAGGACATGAAGAAAGCCAAGGAGCAGCTGAAAATCCGTAAGAGCA
ACCAGATACCTACTGAAGTCAGAAGCAAAGCTGAGGAGGTGGTATCATTTATGAAGAAAAATGTTCTCGTGACAGGGGGA
TTTTTTGGAGGCTTTCTGCTTGGCATGGCATCC

ORF - retro_chof_2087 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.34 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalNFEGNFDSLDLAELAKKQPWWRKLFGQESGPSAEKYSVATQLLIGGVTGWCTGFIFQKVGKLAATAVGGG
NFEGNFDSLDLAELAKKQPWWRKLFGQESGPSAEK.SVATQLLIGGVTGWCTGFIFQKVGKLAATAVGGG
RetrocopyNFEGNFDSLDLAELAKKQPWWRKLFGQESGPSAEKHSVATQLLIGGVTGWCTGFIFQKVGKLAATAVGGG
ParentalFF-LLQLANHTGYIKVDWQRVEKDMKKAKEQLKIHKSNQIPTEVRSKAEEXXXXXXXXXLMTGGFFGGFL
FF.LLQLANHTGYIKVDWQRVEKDMKKAKEQLKI.KSNQIPTEVRSKAEE.........L.TGGFFGGFL
RetrocopyFF>LLQLANHTGYIKVDWQRVEKDMKKAKEQLKIRKSNQIPTEVRSKAEEVVSFMKKNVLVTGGFFGGFL
ParentalVGMAS
.GMAS
RetrocopyLGMAS

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_2087 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 19 parental genes, and 49 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000169771 retrocopy
Choloepus hoffmanni ENSCHOG00000004306 11 retrocopies
Callithrix jacchus ENSCJAG000000042873 retrocopies
Dipodomys ordii ENSDORG000000131561 retrocopy
Echinops telfairi ENSETEG000000138172 retrocopies
Homo sapiens ENSG000001657753 retrocopies
Loxodonta africana ENSLAFG000000152891 retrocopy
Myotis lucifugus ENSMLUG000000077761 retrocopy
Macaca mulatta ENSMMUG000000102481 retrocopy
Monodelphis domestica ENSMODG000000164841 retrocopy
Mus musculus ENSMUSG000000311982 retrocopies
Nomascus leucogenys ENSNLEG000000144435 retrocopies
Otolemur garnettii ENSOGAG000000334613 retrocopies
Pongo abelii ENSPPYG000000208974 retrocopies
Pan troglodytes ENSPTRG000000418524 retrocopies
Pteropus vampyrus ENSPVAG000000135521 retrocopy
Rattus norvegicus ENSRNOG000000240662 retrocopies
Sus scrofa ENSSSCG000000128171 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000078012 retrocopies



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