RetrogeneDB ID:

retro_itri_1617

Retrocopy
location
Organism:Squirrel (Ictidomys tridecemlineatus)
Coordinates:JH393576.1:194795..195190(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CYB5A
Ensembl ID:ENSSTOG00000022436
Aliases:None
Description:cytochrome b5 type A (microsomal) [Source:HGNC Symbol;Acc:2570]


Retrocopy-Parental alignment summary:






>retro_itri_1617
ATGGCCGAGCAGTCGGACAAGGCTGTAAAGTACTACACCCTGGAAGAGATCCAGAAGCACAACAGCAAAAGCACCTGGGT
GATCCTGCACCACAAGGTGCTTTGACTAAATTTCTGGAAGAGCATCCTGGTGGAGAAGAAGTCTTAAGAGAACAAGCTGG
GGGTGATGCTGCGGAGAACTTTGAGGATGTTGGGCACTCTACTGATGCTAGAGAACTGTCCAAGACATACATCATCCGGG
AGGTCCATCCAGATGACAGATCTAAGTTAGCCAAGCCTTCAGAATCTCTTATTACTACTGTTTAGTCTAATTCCAGTTGG
TGGACCAACTGGGTGATCCCAGCCGTCTCAGCCCTGGCTGTAGCCCTAATGTATCACCTCTACATGGCAGAGGAC

ORF - retro_itri_1617 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.48 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAEQSDKAVKYYTLEEIQKHNNSKSTWVILHHKVYDLTKFL-EEHPGGEEVLREQAGGDATENFEDVGHS
MAEQSDKAVKYYTLEEIQKHN.SKSTWVILHHKV..L.....E...G.E.......G.DA.ENFEDVGHS
RetrocopyMAEQSDKAVKYYTLEEIQKHN-SKSTWVILHHKVL*LNFWK<EHPGGEEVLREQAGG-DAAENFEDVGHS
ParentalTDARELSKTYIIGELHPDDRSKLAKPSESLITTVESNSSWWTNWVIPAISALAVALMYHLYMAED
TDARELSKTYII.E.HPDDRSKLAKPSESLITTV.SNSSWWTNWVIPA.SALAVALMYHLYMAED
RetrocopyTDARELSKTYIIREVHPDDRSKLAKPSESLITTV*SNSSWWTNWVIPAVSALAVALMYHLYMAED

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






RNA-Seq - click to see more details

Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.