RetrogeneDB ID:

retro_dord_699

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:scaffold_58005:338..826(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Naca
Ensembl ID:ENSDORG00000014522
Aliases:None
Description:nascent polypeptide-associated complex alpha polypeptide [Source:MGI Symbol;Acc:MGI:106095]


Retrocopy-Parental alignment summary:






>retro_dord_699
GACTGCACAGAAGCATCCACACAACAAACCTAGTTGGCAGCAGCAGTAGAAATTGATGAAGAACCAGTGAGTAAAGCCAA
ACAGAGTAGGAGTGAAGGGAAAGCACGAAAGGCTATGTCCAGACTGGGTCTTCTGACAAGTTTCAGGGGTTACTAGACTC
ACTATCCAGAAATCGAAGAATATCCTCTTTGTCATCATAAAATCAGACGTCAACAAGGGCCCAGCTTCAGACATCTACAT
AGTTTTGGGGGAAGCTAGGATTGAGGACTTACTCAGCAAGCACAGGTAGCAGCTGCAGAGAAATGTAAAGTTCAAGGTGA
AGCTGTCTCAAACATTCAAAGAAAGACACAGACTCCAACTGTACAAGAGAAGAGGGAAGAGGAAGAGGTCAATGAAACAG
GTGTGGAGGTTAAGGACATGGAATTGGTCATGCCACAAACAAATGTGTCAAGAGCAAAGGCAGTCGAGCCCTGAAGAATG
ATAGTAAT

ORF - retro_dord_699 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.92 %
Parental protein coverage: 75.7 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalDSTQAHSQQQ-LAAAAEIDEEPVSKAKQSRSEKKARKAMSKLGLR-QVTGVTRVTIRKSKNILFVITKPD
D.T.A..QQ..LAAA.EIDEEPVSKAKQSRSE.KARKAMS.LGL..QV.GVTR.TI.KSKNILFVI.K.D
RetrocopyDCTEASTQQT*LAAAVEIDEEPVSKAKQSRSEGKARKAMSRLGLL>QVSGVTRLTIQKSKNILFVIIKSD
ParentalVYKSPASDTYIVFGEAKIEDL-SQQAQLAAAEKFKVQGEAVSNIQENTQTPTVQEESEEEEVDETGVEVK
V.K.PASD.YIV.GEA.IEDL..QQAQ.AAAEK.KVQGEAVSNIQ..TQTPTVQE..EEEEV.ETGVEVK
RetrocopyVNKGPASDIYIVLGEARIEDL<TQQAQVAAAEKCKVQGEAVSNIQRKTQTPTVQEKREEEEVNETGVEVK
ParentalDIELVMSQANVSRAKAV-RALKNNSN
D.ELVM.Q.NVSRAKAV.RALKN.SN
RetrocopyDMELVMPQTNVSRAKAV<RALKNDSN

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






Dipodomys ordii was not studied using RNA-Seq expression data.
Dipodomys ordii was not studied using ChIP-Seq data.
Dipodomys ordii was not studied using EST data.
Dipodomys ordii was not studied using FANTOM5 data.
retro_dord_699 was not experimentally validated.

Retrocopy orthology:
Dipodomys ordii 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 14 parental genes, and 81 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000041753 retrocopies
Canis familiaris ENSCAFG000000001418 retrocopies
Callithrix jacchus ENSCJAG000000107018 retrocopies
Dipodomys ordii ENSDORG00000014522 2 retrocopies
retro_dord_228, retro_dord_699 ,
Homo sapiens ENSG000001965316 retrocopies
Loxodonta africana ENSLAFG000000045986 retrocopies
Microcebus murinus ENSMICG000000164655 retrocopies
Myotis lucifugus ENSMLUG0000000116916 retrocopies
Macaca mulatta ENSMMUG000000030734 retrocopies
Nomascus leucogenys ENSNLEG000000174497 retrocopies
Ochotona princeps ENSOPRG000000017813 retrocopies
Procavia capensis ENSPCAG000000070675 retrocopies
Pongo abelii ENSPPYG000000046706 retrocopies
Vicugna pacos ENSVPAG000000040282 retrocopies



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