RetrogeneDB ID:

retro_dnov_2427

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_7401:72519..72844(-)
Located in intron of:ENSDNOG00000003560
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ARPP19
Ensembl ID:ENSDNOG00000004474
Aliases:None
Description:cAMP-regulated phosphoprotein, 19kDa [Source:HGNC Symbol;Acc:16967]


Retrocopy-Parental alignment summary:






>retro_dnov_2427
CAAATCCCTGAGGCAGCCTCAGTGGAGGAGCCGAAGGAAATGCAAGATAACGCGGCTAGCCTTGGGAAATCAGAAGAAGC
AAAATTAAGAGCAAAGTATTCTCATCTGGGACAAAAGCTTGGAGGTTCCTCTTTCTTAAGAAAACTTTTACAGATAGGAC
AAAAATATTTTGATTCTGGGGATTCAAAACATGACTAACGCAAAAATGAAGAACCAGCAACCTCCTACGGTAGCCCCAGA
TAAGAGCGAGGTCACTGGTGACCTCATTCCCGCTCCACAGAACCTTCCTCAATGGAAACCATCCCTTGCTGCTAGCTGGC
TGGCT

ORF - retro_dnov_2427 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.56 %
Parental protein coverage: 96.43 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalEIPEAASAEEQKEMEDKVTSPEKAEEAKLKARYPHLGQKPGGSDFLRKRLQKGQKYFDSGD-YNMAKAKM
.IPEAAS.EE.KEM.D...S..K.EEAKL.A.Y.HLGQK.GGS.FLRK.LQ.GQKYFDSGD..NM..AKM
RetrocopyQIPEAASVEEPKEMQDNAASLGKSEEAKLRAKYSHLGQKLGGSSFLRKLLQIGQKYFDSGD>QNMTNAKM
ParentalKNKQLPTAAPDKTEVTGDHIPTPQDLPQRKPSLVASKLA
KN.Q.PT.APDK.EVTGD.IP.PQ.LPQ.KPSL.AS.LA
RetrocopyKNQQPPTVAPDKSEVTGDLIPAPQNLPQWKPSLAASWLA

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP012922_ascending_colon 0 .00 RPM 19 .45 RPM
SRP012922_cerebellum 0 .00 RPM 18 .28 RPM
SRP012922_heart 0 .00 RPM 13 .23 RPM
SRP012922_kidney 0 .00 RPM 9 .31 RPM
SRP012922_liver 0 .00 RPM 8 .36 RPM
SRP012922_lung 0 .00 RPM 21 .08 RPM
SRP012922_quadricep_muscle 0 .00 RPM 70 .62 RPM
SRP012922_spleen 0 .00 RPM 30 .79 RPM
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_2427 was not experimentally validated.

Retrocopy orthology:
Dasypus novemcinctus 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 16 parental genes, and 48 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000110225 retrocopies
Canis familiaris ENSCAFG000000325152 retrocopies
Cavia porcellus ENSCPOG000000112281 retrocopy
Dasypus novemcinctus ENSDNOG00000004474 9 retrocopies
Dipodomys ordii ENSDORG000000113212 retrocopies
Echinops telfairi ENSETEG000000155501 retrocopy
Homo sapiens ENSG000001289892 retrocopies
Gorilla gorilla ENSGGOG000000252501 retrocopy
Nomascus leucogenys ENSNLEG000000065512 retrocopies
Oryctolagus cuniculus ENSOCUG0000001548910 retrocopies
Otolemur garnettii ENSOGAG000000138651 retrocopy
Pongo abelii ENSPPYG000000064872 retrocopies
Pan troglodytes ENSPTRG000000421831 retrocopy
Sus scrofa ENSSSCG000000046181 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000036777 retrocopies
Tursiops truncatus ENSTTRG000000048041 retrocopy



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