RetrogeneDB ID:

retro_dord_258

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:GeneScaffold_6813:222217..222655(-)
Located in intron of:ENSDORG00000009335
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Ywhab
Ensembl ID:ENSDORG00000001064
Aliases:None
Description:tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide [Source:MGI Symbol;Acc:MGI:1891917]


Retrocopy-Parental alignment summary:






>retro_dord_258
ATTGAGCAAAAGACAGAAAGTTCTGAGAAAAAGCAGCAAATCGGTGAGAACACAGGAAGAATTGAGAACAAGCTAAGAGA
TATCTGCAGTGATATACTGTCTCTTTTGGAAAAGTTCTTGACCCCTAATTCTCCACAAGCAAAGAGAAAAGTTTTCTATT
TGAAAATAAAGAAAGACTTCTATCACATCATGGGTGAGGTTGCTGCTGGTAATGACAAGAAAGGAATTGTGAATCAGGCA
CACCAAGCATACCAAGAAGTTTTTTAAGTGAGCAAAAAGGAAATGCAACCAATGCATCCTATCAGATTGTGTCTGGCCCC
TAAATTCTCAGTGTTCAATTATGAGATTCTGAACTCCACAGAGGAAGTTTCTTTTCTTGAAAGGACAGCTTTTGATGAAA
TCATTGCTGAACTTTATTCTTTATGTGAGTTATGTTAC

ORF - retro_dord_258 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 57.82 %
Parental protein coverage: 81.56 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalIEQK-ERNEKKQQMGKEYREKIEAELQDICNDVLELLDKYLIPNATQPESKVFYLKMKGDYFRYLSEVAS
IEQK.E..EKKQQ.G.E....IE..L.DIC.D.L.LL.K.L.PN..Q...KVFYLK.K.D......EVA.
RetrocopyIEQKTESSEKKQQIG-ENTGRIENKLRDICSDILSLLEKFLTPNSPQAKRKVFYLKIKKDFYHIMGEVAA
ParentalGDNKQTTVSNSQQAYQEAFEISKKEMQPTHPIRLGLALNFSVFYYEILNSPEKACSLAKTAFDEAIAELD
G..K...V....QAYQE.F..SKKEMQP.HPIRL.LA..FSVF.YEILNS.E....L..TAFDE.IAEL.
RetrocopyGNDKKGIVNQAHQAYQEVF*VSKKEMQPMHPIRLCLAPKFSVFNYEILNSTEEVSFLERTAFDEIIAELY
ParentalTLNEESY
.L.E..Y
RetrocopySLCELCY

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_258 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 25 parental genes, and 139 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000117961 retrocopy
Choloepus hoffmanni ENSCHOG0000000578215 retrocopies
Callithrix jacchus ENSCJAG000000176642 retrocopies
Dipodomys ordii ENSDORG00000001064 14 retrocopies
Echinops telfairi ENSETEG000000099674 retrocopies
Homo sapiens ENSG000001669134 retrocopies
Gorilla gorilla ENSGGOG000000045802 retrocopies
Microcebus murinus ENSMICG000000009737 retrocopies
Myotis lucifugus ENSMLUG000000063191 retrocopy
Macaca mulatta ENSMMUG000000132063 retrocopies
Monodelphis domestica ENSMODG000000162002 retrocopies
Nomascus leucogenys ENSNLEG000000066432 retrocopies
Oryctolagus cuniculus ENSOCUG000000030021 retrocopy
Otolemur garnettii ENSOGAG000000089093 retrocopies
Ochotona princeps ENSOPRG000000118362 retrocopies
Pongo abelii ENSPPYG000000110415 retrocopies
Pan troglodytes ENSPTRG0000001352912 retrocopies
Pteropus vampyrus ENSPVAG000000126621 retrocopy
Sarcophilus harrisii ENSSHAG000000112411 retrocopy
Sus scrofa ENSSSCG000000073811 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000037331 retrocopy
Tupaia belangeri ENSTBEG0000000280647 retrocopies
Tarsius syrichta ENSTSYG000000065374 retrocopies
Tursiops truncatus ENSTTRG000000076151 retrocopy
Vicugna pacos ENSVPAG000000050233 retrocopies



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