RetrogeneDB ID:

retro_dord_727

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:scaffold_65550:2707..3142(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Prdx1
Ensembl ID:ENSDORG00000008975
Aliases:None
Description:peroxiredoxin 1 [Source:MGI Symbol;Acc:MGI:99523]


Retrocopy-Parental alignment summary:






>retro_dord_727
GCACCTTACTTTAAAGGCTTGGCTGTTGTCAATGGAGAGTTCAAAGAGCTTAGCCTTGATGACTTTAAGGGGAAATACTT
GGTGCTTTTCTTCTACCCTTTGGATTTCACCTTTGTGTGTCCTACAGACATTGTTGCTTTTAGTGACAAAGCCAGTGAGT
TTCATGACGTGAACTGTGAGGTCATTGCCATGGACTCCCACTTTAGCCTTGCCTGGATCAATACACCAAGGAAGAATGGA
GACTTGGGCCACATGAACATTGCACTCTTGTTGGATTGAACCAAACAAATTTCCCAGGACTATGGTGTGCTGTTGGAAGG
TCTTGGTCTTGCACTCAGAGGTCTCTTCATAATTGACCCCAGGGGAGTCATCAAGCATCTGAGTGTCAATGACCTGCCAG
TGGGCCGGAGTGTGGAAGAGACCCTCAGCTTGGTT

ORF - retro_dord_727 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.4 %
Parental protein coverage: 87.13 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalAPSFRATAVMPDGQFKDISLADYKGKYVVFFFYPLDFTFVCPTEIIAFSDRAEEFKKLNCQVIGASVDSH
AP.F...AV...G.FK..SL.D.KGKY.V.FFYPLDFTFVCPT.I.AFSD.A.EF...NC.VI....DSH
RetrocopyAPYFKGLAVV-NGEFKELSLDDFKGKYLVLFFYPLDFTFVCPTDIVAFSDKASEFHDVNCEVI--AMDSH
ParentalFCHLAWINTPKKQGGLGPMNIPLVSDPKRTIAQDYGVLKSDEGISFRGLFIIDDKGILRQITINDLPVGR
F..LAWINTP.K.G.LG.MNI.L..D....I.QDYGVL....G...RGLFIID..G.......NDLPVGR
RetrocopyFS-LAWINTPRKNGDLGHMNIALLLD*TKQISQDYGVLLEGLGLALRGLFIIDPRGVIKHLSVNDLPVGR
ParentalSVDEILRLV
SV.E.L.LV
RetrocopySVEETLSLV

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_727 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 31 parental genes, and 85 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000136322 retrocopies
Bos taurus ENSBTAG000000036422 retrocopies
Canis familiaris ENSCAFG000000045675 retrocopies
Choloepus hoffmanni ENSCHOG000000033585 retrocopies
Ciona intestinalis ENSCING000000030021 retrocopy
Callithrix jacchus ENSCJAG000000048072 retrocopies
Cavia porcellus ENSCPOG000000141373 retrocopies
Dasypus novemcinctus ENSDNOG000000184881 retrocopy
Dipodomys ordii ENSDORG00000008975 1 retrocopy
retro_dord_727 ,
Dipodomys ordii ENSDORG000000090051 retrocopy
Equus caballus ENSECAG000000086781 retrocopy
Echinops telfairi ENSETEG0000000792211 retrocopies
Felis catus ENSFCAG000000284841 retrocopy
Homo sapiens ENSG000001174501 retrocopy
Macropus eugenii ENSMEUG000000068204 retrocopies
Macaca mulatta ENSMMUG000000062211 retrocopy
Monodelphis domestica ENSMODG000000023822 retrocopies
Mus musculus ENSMUSG000000286915 retrocopies
Nomascus leucogenys ENSNLEG000000145242 retrocopies
Oryctolagus cuniculus ENSOCUG000000059512 retrocopies
Otolemur garnettii ENSOGAG000000023034 retrocopies
Pongo abelii ENSPPYG000000014111 retrocopy
Pan troglodytes ENSPTRG000000006751 retrocopy
Pteropus vampyrus ENSPVAG000000150011 retrocopy
Rattus norvegicus ENSRNOG000000171948 retrocopies
Sorex araneus ENSSARG000000047035 retrocopies
Sus scrofa ENSSSCG000000039141 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000234132 retrocopies
Tupaia belangeri ENSTBEG000000159974 retrocopies
Tarsius syrichta ENSTSYG000000110311 retrocopy
Tursiops truncatus ENSTTRG000000088584 retrocopies



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