RetrogeneDB ID:

retro_fcat_1453

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:D1:75682245..75682595(-)
Located in intron of:ENSFCAG00000004971
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL34
Ensembl ID:ENSFCAG00000015502
Aliases:None
Description:ribosomal protein L34 [Source:HGNC Symbol;Acc:10340]


Retrocopy-Parental alignment summary:






>retro_fcat_1453
ATGGTCTAGCGTTTGACATACCATCGTAGGCTGTCCTACAAAACAGCCTCTGATGAAACTAAGCTGTCCCGAACCTCTGG
CAATAGAATCATTTACCTTTAGACCAAGAAGGTTGGGAAGGCACCAGACTCCACATGTGGCATGTGCCCAGGCCAGCTTC
AAGGAGCTCGTGCTGTGACGCCTATAGTTCTTCGAGGTTGCCTGAAGTGGAAAAACATGTCAGCAGGGCCTATGGTGGTT
CCGTGTGTGCTAAGTGTGTTCATGACAGGATCAAGCGTGCTTTCCTTATTAAAGAGGAGAAAATCGTCGTGAAAGTGTTG
AAAGCGCAAACATAGAGTCAGAAAGCTAAA

ORF - retro_fcat_1453 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.42 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMVQRLTYRRRLSYNTASNKTRLSRTPGNRIVYLYTKKVGKAPKSACGVCPGRLRGVRAVRPKVL-MRLSK
MV.RLTY.RRLSY.TAS..T.LSRT.GNRI.YL.TKKVGKAP.S.CG.CPG.L.G.RAV.P.VL..RL..
RetrocopyMV*RLTYHRRLSYKTASDETKLSRTSGNRIIYL*TKKVGKAPDSTCGMCPGQLQGARAVTPIVL<SRLPE
ParentalTKKHVSRAYGGSMCAKCVRDRIKRAFLIEEQKIVVKVLKAQAQSQKAK
..KHVSRAYGGS.CAKCV.DRIKRAFLI.E.KIVVKVLKAQ..SQKAK
RetrocopyVEKHVSRAYGGSVCAKCVHDRIKRAFLIKEEKIVVKVLKAQT*SQKAK

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 56 .47 RPM
SRP017611_kidney 0 .00 RPM 179 .11 RPM
SRP017611_liver 0 .00 RPM 84 .61 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1453 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1453 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 17 parental genes, and 181 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000159934 retrocopies
Dasypus novemcinctus ENSDNOG0000001117926 retrocopies
Felis catus ENSFCAG00000015502 16 retrocopies
Gadus morhua ENSGMOG000000099821 retrocopy
Loxodonta africana ENSLAFG000000326156 retrocopies
Macropus eugenii ENSMEUG000000093613 retrocopies
Myotis lucifugus ENSMLUG000000004644 retrocopies
Monodelphis domestica ENSMODG000000206013 retrocopies
Mus musculus ENSMUSG0000006200626 retrocopies
Nomascus leucogenys ENSNLEG0000001293420 retrocopies
Pelodiscus sinensis ENSPSIG000000032951 retrocopy
Rattus norvegicus ENSRNOG0000001638736 retrocopies
Sarcophilus harrisii ENSSHAG000000013571 retrocopy
Sarcophilus harrisii ENSSHAG000000020523 retrocopies
Tupaia belangeri ENSTBEG0000000357424 retrocopies
Tursiops truncatus ENSTTRG000000034436 retrocopies
Xenopus tropicalis ENSXETG000000210951 retrocopy



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