RetrogeneDB ID:

retro_fcat_1022

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:B4:36298923..36299339(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL23
Ensembl ID:ENSFCAG00000014502
Aliases:None
Description:ribosomal protein L23 [Source:HGNC Symbol;Acc:10316]


Retrocopy-Parental alignment summary:






>retro_fcat_1022
ATGTGGAAGTGAGGATGTGGTGAGTCCTCCGATGTGAAATTCCAGATTTCCCTGGGTCTTCCAGTAGGAGCCATGATCCA
CTATGCTGACCACACAGGAGCCCAGAGTCTGTATATCATCTCTGTAAAGGGGATAAGGCACTAAATACACATCCTGCTGC
TGGCGTGGGTGACATGGGGATGGCCACAGTGAAGAAAGGCAAACCAGAGCCCAGAAAGAAAGTACATCCAGCAGTGATAA
CTGGATAATGAAAGTCTTACCGGAGAAAAGATGGTGTGTTTTTCTATTTTGAAGGTAACACAGGGGTCACTGAAAACAAT
AAAGGTGAAATGACAGATTCTGCTATCATGGAACCAGTTGCAAAGGGGTGTACAGACCGGTACCCCAGGACTGCATCCAA
TGCGGGTGGTATTGCA

ORF - retro_fcat_1022 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.92 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMSKRGRGGSSGAKFRISLGLPVGAVINCADNTGAKNLYIISVK-GIKGRLNRLPAAGVGDMVMATVKKGK
M.K.G.G.SS..KF.ISLGLPVGA.I..AD.TGA..LYIISVK.G.K..LN..PAAGVGDM.MATVKKGK
RetrocopyMWK*GCGESSDVKFQISLGLPVGAMIHYADHTGAQSLYIISVK<GDKA-LNTHPAAGVGDMGMATVKKGK
ParentalPELRKKVHPAVVIRQRKSYRRKDGVFLYFEDNAGVIVNNKGEMKGSAITGPVAKECADLWPRIASNAGSI
PE.RKKVHPAV.....KSYRRKDGVF.YFE.N.GV..NNKGEM..SAI..PVAK.C.D..PR.ASNAG.I
RetrocopyPEPRKKVHPAVITG**KSYRRKDGVFFYFEGNTGVTENNKGEMTDSAIMEPVAKGCTDRYPRTASNAGGI
ParentalA
A
RetrocopyA

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 82 .18 RPM
SRP017611_kidney 0 .00 RPM 394 .09 RPM
SRP017611_liver 0 .00 RPM 158 .31 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1022 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1022 was not experimentally validated.

Retrocopy orthology:
Felis catus 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 13 parental genes, and 89 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000042686 retrocopies
Callithrix jacchus ENSCJAG000000083119 retrocopies
Dipodomys ordii ENSDORG000000013723 retrocopies
Felis catus ENSFCAG00000014502 10 retrocopies
Homo sapiens ENSG000001256919 retrocopies
Latimeria chalumnae ENSLACG000000044301 retrocopy
Macaca mulatta ENSMMUG000000045029 retrocopies
Nomascus leucogenys ENSNLEG000000006427 retrocopies
Oryctolagus cuniculus ENSOCUG000000139156 retrocopies
Otolemur garnettii ENSOGAG000000124457 retrocopies
Ochotona princeps ENSOPRG0000000195710 retrocopies
Rattus norvegicus ENSRNOG0000000410710 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000142792 retrocopies



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