RetrogeneDB ID:

retro_ocun_1381

Retrocopy
location
Organism:Rabbit (Oryctolagus cuniculus)
Coordinates:7:129118260..129118682(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NDUFV2
Ensembl ID:ENSOCUG00000009899
Aliases:None
Description:NADH dehydrogenase (ubiquinone) flavoprotein 2, 24kDa [Source:HGNC Symbol;Acc:7717]


Retrocopy-Parental alignment summary:






>retro_ocun_1381
CTATCTGCTGTGAACAAGGTTGGAGAAGTTTTACAAGTACCTCCAATGAGAGTATATGAGGCAGCCACCTTTTACACCAT
GTATTATCTAAAGTCAGTTGGAAAATGCTACGTTCAGGTCTGCACTACTACCTTGCATGCTTCAAGACTCTGAGGGAGTA
CTGGAGGCTATTCAGAAAAAGCTGGGAACAAAGGTTGGGAAAACTACACCTGGCAAGCTTCACTCTTAAACAGGTGGAAT
ATCTAGGGGCCTGTGTAAAATGCACCGATAATTCAAATTAATGACAACTACTATGAGGTTCTAACATCTAAGGATATTGA
AGAAACTGTGGATGAGCTGAAGGCTGGCAAAATTCCAAAACCTGGCCAAGGAAGGGACACCTCTCTTGTGAGCCAGCTGG
AGTTCTTACCTCTTGGGTTGAG

ORF - retro_ocun_1381 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.97 %
Parental protein coverage: 57.03 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalISAMNKVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTT-PCMLRNSDSILEAIQKKLGIKVGET
.SA.NKV.EVLQVPPMRVYE.ATFYTMY..K.VGK...QVC.TT.PCML..S...LEAIQKKLG.KVG.T
RetrocopyLSAVNKVGEVLQVPPMRVYEAATFYTMYYLKSVGKCYVQVC-TT>PCMLQDSEGVLEAIQKKLGTKVGKT
ParentalTPDKLFTLIEVECLGACV-NAPMVQINDNYYEDLTPKDIEEIIDELKAGKIPKPG-PRSGRFSCEPAGGL
TP.KL.........G.C..NAP..QINDNYYE.LT.KDIEE..DELKAGKIPKPG.PR.G..SCEPAG.L
RetrocopyTPGKLHS*TGGISRGLCK<NAPIIQINDNYYEVLTSKDIEETVDELKAGKIPKPG<PRKGHLSCEPAGVL
ParentalTSLTE
TS..E
RetrocopyTSWVE

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
SRP017611_brain 0 .00 RPM 87 .92 RPM
SRP017611_kidney 0 .00 RPM 97 .00 RPM
SRP017611_liver 0 .00 RPM 23 .12 RPM
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1381 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1381 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ocun_1381 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 21 parental genes, and 46 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000074151 retrocopy
Bos taurus ENSBTAG000000048712 retrocopies
Choloepus hoffmanni ENSCHOG000000137141 retrocopy
Cavia porcellus ENSCPOG000000084794 retrocopies
Dasypus novemcinctus ENSDNOG000000170361 retrocopy
Dipodomys ordii ENSDORG000000081795 retrocopies
Erinaceus europaeus ENSEEUG000000068181 retrocopy
Homo sapiens ENSG000001781271 retrocopy
Loxodonta africana ENSLAFG000000105202 retrocopies
Macaca mulatta ENSMMUG000000220951 retrocopy
Mustela putorius furoENSMPUG000000047102 retrocopies
Oryctolagus cuniculus ENSOCUG00000009899 3 retrocopies
retro_ocun_1083, retro_ocun_1381 , retro_ocun_678,
Otolemur garnettii ENSOGAG000000101182 retrocopies
Ochotona princeps ENSOPRG000000127882 retrocopies
Procavia capensis ENSPCAG000000062842 retrocopies
Rattus norvegicus ENSRNOG000000425031 retrocopy
Sorex araneus ENSSARG000000118762 retrocopies
Sus scrofa ENSSSCG000000036831 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000162591 retrocopy
Tupaia belangeri ENSTBEG000000154268 retrocopies
Tursiops truncatus ENSTTRG000000024263 retrocopies



Copyright © RetrogeneDB 2014-2017