RetrogeneDB ID:

retro_chof_1660

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_352890:876..1231(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TMEM243
Ensembl ID:ENSCHOG00000004888
Aliases:None
Description:transmembrane protein 243, mitochondrial [Source:HGNC Symbol;Acc:21707]


Retrocopy-Parental alignment summary:






>retro_chof_1660
ATGGAGGCATTTTCTGGCAGGACTTAAGGCACCAGTGGCTGGGACAACAGACCTCTGTTTGGAAAGAAGTTGGCCAAGGA
TTGAATCATCAGTTTAGTTGTTGGAAGCTTGCCATCTTTATTAATTCTAGTAACACTGATCAGTGCTTTTGTTTTCCCTC
AACTACCTCCTAAACCACTGAATATATTTTTTACTGTCTGCCTCTCTTTCAGTTTTATGACCAACTGCATACTTATCTAC
CGGTATCCACAAGGAGACTTAGAAACAAAATTTAGAAACCTAATTTACTATTATCTTATTTTCTATCATCATGTTATGTA
CATGTGCAAACTTGTATTTCCATGATGTGGGAAAG

ORF - retro_chof_1660 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.35 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMEDFSTRTYGTSGLDNRPLFGETSAKDRIINLVVGSLTSLLILVTLISAFVFPQLPPKPLNIFFAVCISL
ME.FS.RT.GTSG.DNRPLFG...AKD.II.LVVGSL.SLLILVTLISAFVFPQLPPKPLNIFF.VC.S.
RetrocopyMEAFSGRT*GTSGWDNRPLFGKKLAKD*IISLVVGSLPSLLILVTLISAFVFPQLPPKPLNIFFTVCLSF
ParentalSSITACILIYWYRQGDLEPKFRNLIYY-ILFSIIMLCICANLYFHDVGK
S..T.CILIY.Y.QGDLE.KFRNLIYY.ILFSIIMLC.CANLYFHDVGK
RetrocopySFMTNCILIYRYPQGDLETKFRNLIYY>ILFSIIMLCTCANLYFHDVGK

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_1660 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 6 parental genes, and 12 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000004888 4 retrocopies
Microcebus murinus ENSMICG000000147071 retrocopy
Otolemur garnettii ENSOGAG000000000232 retrocopies
Rattus norvegicus ENSRNOG000000427581 retrocopy
Sorex araneus ENSSARG000000024391 retrocopy
Tupaia belangeri ENSTBEG000000078463 retrocopies



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