RetrogeneDB ID:

retro_chof_1984

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_443705:21..548(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GRPEL2
Ensembl ID:ENSCHOG00000004070
Aliases:None
Description:GrpE-like 2, mitochondrial (E. coli) [Source:HGNC Symbol;Acc:21060]


Retrocopy-Parental alignment summary:






>retro_chof_1984
CCTCCTGATGAGTTGGGTCAACTCTGGCTGAACAAACCTTCAGGCTAAAAGCTAGTAAACTGGAGAAGGAAGTCCAGGGT
TTAACAGTGAGATGGCAGAGAGCTGTGGCTGATTCTGAAAACCTAAGGACACAAATCCAAAGATGTCTAGATGATGCCAA
GATATTTGGAATCCAGAGTTTCTGTAAGGACTTGGTGGAGGTGGTAAATGTTTTAGAGAAGACTACAGAGTACAATTCTG
GAGAAAAAGAGCCTGGGGACCAGAAGCTAAGTCTGGAGAAGGTCTTCCAAGGGTTGTCACTTTTGGAAGCAAAGCTGAAA
AGCATGTTTGCCAAGCATGGCCTGGAGAAGATGACACCCATTGGTGACAAATATGACCTTTAAGAGCAGGAACTCACATG
TCATATGCCAGCTGGTGGTGGGGTACAGCCTGGCACTGTGGCACTAGTAAGGCAAAATGGCTACAAACTTCATGGCTGCA
CCATTAGACTTGCCCAGGTAGAAGTAGCAGCGGAGTTTCAGAGAAGA

ORF - retro_chof_1984 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.36 %
Parental protein coverage: 78.22 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalPPDELGP-SLAERALRLKAIKLEKEVQDLTVRCQRAVADAENIRRRTQRCVEDAKIFGIQSFCKDLVEVA
PPDELG...LAE...RLKA.KLEKEVQ.LTVR.QRAVAD.EN.R...QRC..DAKIFGIQSFCKDLVEV.
RetrocopyPPDELGQ<TLAEQTFRLKASKLEKEVQGLTVRWQRAVADSENLRTQIQRCLDDAKIFGIQSFCKDLVEVV
ParentalDILEKTTEYISGEREPGDQKLTLEKVFQGLSLLEAKLKSVFAKHGLEKMTPIGDKYDPHEHELICHVPAG
..LEKTTEY.SGE.EPGDQKL.LEKVFQGLSLLEAKLKS.FAKHGLEKMTPIGDKYD..E.EL.CH.PAG
RetrocopyNVLEKTTEYNSGEKEPGDQKLSLEKVFQGLSLLEAKLKSMFAKHGLEKMTPIGDKYDL*EQELTCHMPAG
ParentalIGVQPGTVALVRQDGYKLHGRTIRLAQVEVAVESQRR
.GVQPGTVALVRQ.GYKLHG.TIRLAQVEVA.E.QRR
RetrocopyGGVQPGTVALVRQNGYKLHGCTIRLAQVEVAAEFQRR

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_1984 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 12 parental genes, and 19 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000004070 1 retrocopy
retro_chof_1984 ,
Dipodomys ordii ENSDORG000000111421 retrocopy
Felis catus ENSFCAG000000036241 retrocopy
Homo sapiens ENSG000001642842 retrocopies
Gorilla gorilla ENSGGOG000000054102 retrocopies
Macaca mulatta ENSMMUG000000216621 retrocopy
Nomascus leucogenys ENSNLEG000000101601 retrocopy
Oryctolagus cuniculus ENSOCUG000000161383 retrocopies
Otolemur garnettii ENSOGAG000000143261 retrocopy
Pongo abelii ENSPPYG000000159332 retrocopies
Pan troglodytes ENSPTRG000000173962 retrocopies
Sorex araneus ENSSARG000000054672 retrocopies



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