RetrogeneDB ID:

retro_itri_1657

Retrocopy
location
Organism:Squirrel (Ictidomys tridecemlineatus)
Coordinates:JH393611.1:463401..463809(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ARPP19
Ensembl ID:ENSSTOG00000003677
Aliases:None
Description:cAMP-regulated phosphoprotein, 19kDa [Source:HGNC Symbol;Acc:16967]


Retrocopy-Parental alignment summary:






>retro_itri_1657
CCTTTGAAGGAAAGAGGAAGTGTTCGGTTGTCACGGAGCCAGAGGAGCGCAGCTGGGCAGAGGGAGCACTATGTCCACCG
AAGTCCCAGAGGTGACCCCGGCGGAGGAGCAGAAGGAAATGGAAGAAGATAAAGTGACTAATCCAGATAAAGCTGAAGAA
GCAAAATTTAAAAGCAAGGTATCCTCACCTGGGACAAAAGCCTGAACGTTTAGATTTTTTAAGGAAACGATTGCAGAAAG
GGCAAAAATATTTTGATTCTGGGGATTGCAACATGCAAAAGCAAAGACGAACAACAAGCAACTTCCCCTGCAGGCCCGGA
TAAGAAAGAGGTCACTGGTGACCATATTCCCACTCCCTAGGACCTTCCTCAACGGAAACCATCCCTTGTTGCTAGCAAGC
TGGCTGGC

ORF - retro_itri_1657 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.57 %
Parental protein coverage: 93.06 %
Number of stop codons detected: 1
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalPLKERGSVRSSRS-RRSAAGQNA-MSAEVPEAASAEEQKEME-DKVTSPEKAEEAK-LKARYPHLGQKPG
PLKERGSVR.SRS.R....G....MS.EVPE...AEEQKEME.DKVT.P.KAEEAK.LKARYPHLGQKP.
RetrocopyPLKERGSVRLSRS>RGAQLGRGSTMSTEVPEVTPAEEQKEMEEDKVTNPDKAEEAK>LKARYPHLGQKPE
ParentalGSDFLRKRLQKGQKYFDSGDYNM-AKAKMKNKQLP-TAAPDKTEVTGDHIPTPQDLPQRKPSLVASKLAG
..DFLRKRLQKGQKYFDSGD.NM.AKAK..NKQLP..A.PDK.EVTGDHIPTP.DLPQRKPSLVASKLAG
RetrocopyRLDFLRKRLQKGQKYFDSGDCNM<AKAKTNNKQLP<PAGPDKKEVTGDHIPTP*DLPQRKPSLVASKLAG

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.