RetrogeneDB ID:

retro_cfam_1410

Retrocopy
location
Organism:Dog (Canis familiaris)
Coordinates:30:33835959..33836202(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL22L1
Ensembl ID:ENSCAFG00000014955
Aliases:None
Description:ribosomal protein L22-like 1 [Source:HGNC Symbol;Acc:27610]


Retrocopy-Parental alignment summary:






>retro_cfam_1410
CCACCAGGAGATGGGACCTTTGATCCTGGAAACCAGAACCATCATCAAAAGGGAAGGTTAAAGGCACTGGAAACCCTGAA
ACCTGGGGAATGTTGTTTACTGAGAACACTTCACGAAAGCAATCATTGTTTTCTGAGAGAAGCCGCTCTCTAAAGGGCAC
TTGAAATACCTCGCCAAGAAATCCTCCAAGAACAATCACCGTGACTCGCTCTGTGGGCTGCCTCCGACAAGGGGACTCAC
CAA

ORF - retro_cfam_1410 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 51.16 %
Parental protein coverage: 69.75 %
Number of stop codons detected: 3
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalPVEDGIFDSGNF-EQFLREKVKVNG-KTGNLGNVVHIERFKNKITVVSEKQFSKRYLKYLTKKYLKKNNL
P..DG.FD.GN..E.....KVK..G.K..NLGNVV..E.F...I.V..EK..SK..LKYL.KK...KNN.
RetrocopyPPGDGTFDPGNQ<EPSSKGKVKGTG<KP*NLGNVVY*EHFTKAIIVF*EKPLSKGHLKYLAKK-SSKNNH
ParentalRDWL-RVVASDKETYE
RD.L....ASDK.T..
RetrocopyRDSL<LWAASDKGTHQ

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
SRP012049_cerebellum 0 .00 RPM 12 .18 RPM
SRP017611_brain 0 .00 RPM 9 .05 RPM
SRP017611_kidney 0 .00 RPM 10 .76 RPM
SRP017611_liver 0 .00 RPM 8 .19 RPM
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_1410 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1410 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cfam_1410 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Sus scrofa retro_sscr_129

Parental genes homology:
Parental genes homology involve 27 parental genes, and 81 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000047301 retrocopy
Canis familiaris ENSCAFG00000014955 2 retrocopies
retro_cfam_1410 , retro_cfam_773,
Callithrix jacchus ENSCJAG000000024271 retrocopy
Cavia porcellus ENSCPOG000000092151 retrocopy
Equus caballus ENSECAG000000188941 retrocopy
Erinaceus europaeus ENSEEUG000000119415 retrocopies
Echinops telfairi ENSETEG000000106589 retrocopies
Homo sapiens ENSG000001635841 retrocopy
Gorilla gorilla ENSGGOG000000017341 retrocopy
Gadus morhua ENSGMOG000000040771 retrocopy
Loxodonta africana ENSLAFG000000132202 retrocopies
Macropus eugenii ENSMEUG000000094841 retrocopy
Myotis lucifugus ENSMLUG000000230522 retrocopies
Myotis lucifugus ENSMLUG000000276838 retrocopies
Macaca mulatta ENSMMUG000000228812 retrocopies
Mus musculus ENSMUSG000000392214 retrocopies
Nomascus leucogenys ENSNLEG000000052872 retrocopies
Oryctolagus cuniculus ENSOCUG000000149622 retrocopies
Otolemur garnettii ENSOGAG000000126422 retrocopies
Procavia capensis ENSPCAG000000087041 retrocopy
Pongo abelii ENSPPYG000000259001 retrocopy
Pteropus vampyrus ENSPVAG000000115241 retrocopy
Rattus norvegicus ENSRNOG000000118172 retrocopies
Sus scrofa ENSSSCG000000274415 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000229723 retrocopies
Tupaia belangeri ENSTBEG0000000035717 retrocopies
Tursiops truncatus ENSTTRG000000070353 retrocopies



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