RetrogeneDB ID:

retro_sara_709

Retrocopy
location
Organism:Shrew (Sorex araneus)
Coordinates:scaffold_261326:90418..90818(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CBX3
Ensembl ID:ENSSARG00000008011
Aliases:None
Description:chromobox homolog 3 [Source:HGNC Symbol;Acc:1553]


Retrocopy-Parental alignment summary:






>retro_sara_709
ATGACTTCCAATAAAATTGCACTGCAAAATACTGGAAAGAAACAAAATCGAAAGAGTAAAAAAGTAGAAGAGGCAGAGCC
TGAAGAATTTGTGGTGTAAACATATTGAACTGACATGTAGTAAATGGAAAGGTGGAATATTTCCTGAAGTGGAAAGATTT
ACAGATGCTGACAGTACTTGGAACCTGAAGAAAATTTAGATTGCCCTGAGTTGATTGAAGAATTTAATTCTCAGAAATCT
GGTAAAAAAGAAAAAAATACCCCCATAGGAAAACTTTACTGACAATGAATATGTTGATAGCACAAGAAACAGTAACAGAT
ATTCTGCTGGAAAACCAAGTGGTCTCGCCAGAAGTCTTGATCCTGGCTGAGTAATTGGTGCCTTAGCAAAAATGAATGAA

ORF - retro_sara_709 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.43 %
Parental protein coverage: 73.77 %
Number of stop codons detected: 2
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMASNKTTLQKMGKKQNGKSKKIEEAEPEEFVV-EKVLDRRVVNGKVEYFLKWKG-FTDADNTW-EPEENL
M.SNK..LQ..GKKQN.KSKK.EEAEPEEFVV....L...VVNGKVEYFLKWK..FTDAD.TW.EPEENL
RetrocopyMTSNKIALQNTGKKQNRKSKKVEEAEPEEFVV<VNILN*HVVNGKVEYFLKWKD<FTDADSTW<EPEENL
ParentalDCPELIEAFLNSQKAGKEKDGTKR-KSLSDSESDDSKSKKKRDAADKPRGFARGLDPERIIGATDSSGE
DCPELIE.F.NSQK.G.....T.......D.E..DS.....R..A.KP.G.AR.LDP...IGA.....E
RetrocopyDCPELIEEF-NSQKSGXXXXXTPI>ENFTDNEYVDSTRNSNRYSAGKPSGLARSLDPG*VIGALAKMNE

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Sorex araneus was not studied using RNA-Seq expression data.
Sorex araneus was not studied using ChIP-Seq data.
Sorex araneus was not studied using EST data.
Sorex araneus was not studied using FANTOM5 data.
retro_sara_709 was not experimentally validated.

Retrocopy orthology:
Sorex araneus 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 9 parental genes, and 63 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG0000001384322 retrocopies
Cavia porcellus ENSCPOG000000151681 retrocopy
Felis catus ENSFCAG000000152246 retrocopies
Homo sapiens ENSG000001225659 retrocopies
Nomascus leucogenys ENSNLEG000000149319 retrocopies
Ochotona princeps ENSOPRG000000117139 retrocopies
Sorex araneus ENSSARG00000008011 2 retrocopies
retro_sara_496, retro_sara_709 ,
Sarcophilus harrisii ENSSHAG000000179131 retrocopy
Sus scrofa ENSSSCG000000167114 retrocopies



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