RetrogeneDB ID:

retro_fcat_517

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:B1:24175150..24175588(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS2
Ensembl ID:ENSFCAG00000029191
Aliases:None
Description:ribosomal protein S2 [Source:HGNC Symbol;Acc:10404]


Retrocopy-Parental alignment summary:






>retro_fcat_517
GAGATGTCTCTCTTCTCCCGGCCCATCAGGGAATCTGAAATCGTTGAGTTTTCCTGGGGGCCTCCCTCAAGGATGAGGTT
TTGAAGATTGTGCCCGCGTAAAAGCAGACCCCCGCCGGCCAGGGGACCAGGTTCAAGGCAACTGTTGCCGTCAGAGCTTA
CGACGGACACGTGGGTCTGGGTGTTAAGGGCTCTGGGGAGGTAGCCGCTGCCATCCTTGGGGCCATTTCCCTGGCCAAGC
CCTCCGTCGTCCCTGTGCGGGTGAGGCTGCTGGGCGAACAAGGTCGTCAAGCCCCACACTCCGTGCACGGTGACCGGCTG
CTGTGGCTCTGTGCTGGTGCGCCTCTTCCCTGTCCCCAGAGGCACTGACACCATGCGAGTCCTGAGCGCACGATGCTACT
GGTGATGGGCTGGCACTGATGGCTGCCACAGTTCAGCT

ORF - retro_fcat_517 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.23 %
Parental protein coverage: 50.17 %
Number of stop codons detected: 1
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalEIYLFSLPIKESEIIDF-FLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDYNGHVGLGVKCSKEVA
E..LFS.PI.ESEI..F.FLGASLKDEVLKI.P..KQT.AGQ.TRFKA.VA...Y.GHVGLGVK.S.EVA
RetrocopyEMSLFSRPIRESEIVEF<FLGASLKDEVLKIVPA*KQTPAGQGTRFKATVAVRAYDGHVGLGVKGSGEVA
ParentalTAIRGAIILAKLSIVPVRR-GYWGNKIGKPHTVPCKVTGRCGSVLVRLIPAPRGTGIV-SAPVPKKLLMM
.AI.GAI.LAK.S.VPVR..G.W.NK..KPHT.PC.VTG.CGSVLVRL.P.PRGT......P....LL.M
RetrocopyAAILGAISLAKPSVVPVRV>GCWANKVVKPHT-PCTVTGCCGSVLVRLFPVPRGTDTM<ASPERTMLLVM
Parental-AGIDDCYTSA
.AG.D.C..SA
Retrocopy>AGTDGCHSSA

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 283 .83 RPM
SRP017611_kidney 0 .00 RPM 608 .66 RPM
SRP017611_liver 0 .00 RPM 446 .62 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_517 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_517 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 12 parental genes, and 211 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000025491 retrocopy
Callithrix jacchus ENSCJAG0000001526715 retrocopies
Felis catus ENSFCAG00000029191 6 retrocopies
Homo sapiens ENSG0000014098847 retrocopies
Gorilla gorilla ENSGGOG000000093715 retrocopies
Macropus eugenii ENSMEUG000000045082 retrocopies
Microcebus murinus ENSMICG0000001276528 retrocopies
Monodelphis domestica ENSMODG000000160771 retrocopy
Otolemur garnettii ENSOGAG0000001009819 retrocopies
Sarcophilus harrisii ENSSHAG000000152135 retrocopies
Tupaia belangeri ENSTBEG0000000672630 retrocopies
Tarsius syrichta ENSTSYG0000001346652 retrocopies



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