RetrogeneDB ID:

retro_sara_179

Retrocopy
location
Organism:Shrew (Sorex araneus)
Coordinates:GeneScaffold_6052:99414..100017(-)
Located in intron of:ENSSARG00000012982
Retrocopy
information
Ensembl ID:ENSSARG00000013029
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:YWHAQ
Ensembl ID:ENSSARG00000012476
Aliases:None
Description:tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide [Source:HGNC Symbol;Acc:12854]


Retrocopy-Parental alignment summary:






>retro_sara_179
GCAACCTGCTACAAGAATGTGGTGGGTGGCCGCCGCTCGGCCTGGAGGGTCATCTCAAGCATCGAGCAGAAGACGGACAG
CTCGGACAGGAAGCTGCAGCTCACCAAGGACTACCGTGAGAAAGTGGAGTCGGAGCTGCGCTCCATCTGCACCACGGCCC
TGGAATTGTTGGATAAGTATTTAATAGCCAATGCAGCTAATCCAGAGAGGAAGGTGTTCTACCTGAAATTGGAGGGGGAT
TATTTCCGGTATCTTGCTGAAGTTGCAAGTGGTGATGATCGAAAACAAACGATAGATGATTCCCAAGGAGCTTATCAGGA
AGCTTTTGATATAAGCAAGAAAGAGATGCAACCTACACATCCTATTCGAATGGGGCTTGCTCTTAACTTTTCTGTATTTT
ATTGTGAGATTCTTAATAACCCAGAGCTGGCCTGCACACTGGCTAAAAGGACTTTTGATGAGGCCATTGCAGAACTTGAT
ATACTGAATGAAGACTCATACAAAGACAGCACCCTCATCATGCAGTTCCTTAGAGATAACCTAACATTATGGACATCAGA
CAGTGCAGGAGAAGAATGCGATGCAGCAGAAGGGGCAGAGAAC

ORF - retro_sara_179 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.54 %
Parental protein coverage: 82.04 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalSVAYKNVVGGRRSAWRVISSIEQKTDSSDKKLQLIKDYREKVESELRSICTTVLELLDKYLIANATNPES
...YKNVVGGRRSAWRVISSIEQKTDSSD.KLQL.KDYREKVESELRSICTT.LELLDKYLIANA.NPE.
RetrocopyATCYKNVVGGRRSAWRVISSIEQKTDSSDRKLQLTKDYREKVESELRSICTTALELLDKYLIANAANPER
ParentalKVFYLKMKGDYFRYLAEVASGDDRKQTIDNSQGAYQEAFDISKKEMQPTHPIRLGLALNFSVFYYEILNN
KVFYLK..GDYFRYLAEVASGDDRKQTID.SQGAYQEAFDISKKEMQPTHPIR.GLALNFSVFY.EILNN
RetrocopyKVFYLKLEGDYFRYLAEVASGDDRKQTIDDSQGAYQEAFDISKKEMQPTHPIRMGLALNFSVFYCEILNN
ParentalPELACTLAKTAFDEAIAELDTLNEDSYKDSTLIMQLLRDNLTLWTSDSAGEECDAAEGAEN
PELACTLAK..FDEAIAELD.LNEDSYKDSTLIMQ.LRDNLTLWTSDSAGEECDAAEGAEN
RetrocopyPELACTLAKRTFDEAIAELDILNEDSYKDSTLIMQFLRDNLTLWTSDSAGEECDAAEGAEN

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_179 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 22 parental genes, and 63 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000086184 retrocopies
Bos taurus ENSBTAG000000021082 retrocopies
Callithrix jacchus ENSCJAG000000063942 retrocopies
Cavia porcellus ENSCPOG000000113214 retrocopies
Equus caballus ENSECAG000000049251 retrocopy
Echinops telfairi ENSETEG000000153594 retrocopies
Felis catus ENSFCAG000000078542 retrocopies
Homo sapiens ENSG000001343082 retrocopies
Gorilla gorilla ENSGGOG000000015691 retrocopy
Myotis lucifugus ENSMLUG000000053831 retrocopy
Monodelphis domestica ENSMODG000000147401 retrocopy
Mustela putorius furoENSMPUG000000132522 retrocopies
Mus musculus ENSMUSG0000007643210 retrocopies
Nomascus leucogenys ENSNLEG000000135343 retrocopies
Oryctolagus cuniculus ENSOCUG000000104821 retrocopy
Otolemur garnettii ENSOGAG000000005473 retrocopies
Pongo abelii ENSPPYG000000126634 retrocopies
Pan troglodytes ENSPTRG000000116412 retrocopies
Pteropus vampyrus ENSPVAG000000053341 retrocopy
Rattus norvegicus ENSRNOG000000081045 retrocopies
Sorex araneus ENSSARG00000012476 4 retrocopies
Tursiops truncatus ENSTTRG000000008714 retrocopies



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