RetrogeneDB ID:

retro_fcat_461

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:A3:18565183..18565729(-)
Located in intron of:ENSFCAG00000003572
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL17
Ensembl ID:ENSFCAG00000011342
Aliases:None
Description:60S ribosomal protein L17 [Source:UniProtKB/Swiss-Prot;Acc:Q5XTY7]


Retrocopy-Parental alignment summary:






>retro_fcat_461
ATTGTTTGCTATTCACTTGACCCAAAAAAACCCTACAAAATCATGCAAATCAAGAGATTAAAATCTTTGTGTTCACTTTA
AGAATGCGCGTGAAACTGCCCAGGCCATCCAGGGTATGCACATCTGAAAAAAGCCACAAGTATCTGAAGGATGTCACTTT
ACAGAAACAACGCATGCCATTCTGGCGCTACGATGGCGGAGGTGGTAGGTGTGCGCAGGCCCCAACAGTGGGGCTGGACA
CAGGGCTGGTGGCCCAAAAAGTGCTGAATTTTTACTGCACGTGCTTAAAAATGCAGAGAGTAAAGCGGACATAAGGGTTT
AGATGCAGAATCTCTGGCCATTGAGCGCATCCAGGAACGAAGCCTCCAAGATGTGGTACAGAATTTACAGAGCTCATGGC
TGGATTAGCCTATACACGTGCTCTCCTTGCCACACTGAGATGATTCTCACTGAAAAACAGAGCAGATTGCCCCTGAACCA
GAAGAGGAGGTTGCAAAGAATAAAAAGATATCCCAGAAGAAAGTGAAGAAACAAAAACTTATGGCC

ORF - retro_fcat_461 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.59 %
Parental protein coverage: 98.91 %
Number of stop codons detected: 1
Number of frameshifts detected 8


Retrocopy - Parental Gene Alignment:

ParentalMVRYSLDPE-NPTKSCKSRGSNLRVHFKNTRETAQAIKGMHI-RKATKYLKDVTLQKQCVPFRRYNGGVG
.V.YSLDP..NPTKSCKSR..NL.VHFKN.RETAQAI.GMHI..K..KYLKDVTLQKQ..PF.RY.GG.G
RetrocopyIVCYSLDPK>NPTKSCKSRD*NLCVHFKNARETAQAIQGMHI>EKSHKYLKDVTLQKQRMPFWRYDGGGG
ParentalRCAQA-KQWGWTQGRW-PKKSAEFLLHMLKNAESNAEL-KGLDVDSLVIEHIQV-NKAPK-MRRRTYRAH
RCAQA..QWGWTQG.W...KSAEFLLH.LKNAES.A...KGLD..SL.IE.IQ...K.P..M..R.YRAH
RetrocopyRCAQA>QQWGWTQG-W>GPKSAEFLLHVLKNAESKADI<KGLDAESLAIERIQE<TKPPR<MWYRIYRAH
ParentalGRINPYMSSPCHIEMILTEKEQIVPKPE-EE-VAQKKKISQKKLKKQKLMA
G.I..Y..SPCH.EMILTEK....P....EE.VA..KKISQKK.KKQKLMA
RetrocopyGWISLYTCSPCHTEMILTEKQSRLPLNQ<EEEVAKNKKISQKKVKKQKLMA

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 .11 RPM 157 .12 RPM
SRP017611_kidney 0 .00 RPM 889 .08 RPM
SRP017611_liver 0 .00 RPM 339 .97 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_461 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_461 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 22 parental genes, and 469 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000000949840 retrocopies
Canis familiaris ENSCAFG000000190447 retrocopies
Choloepus hoffmanni ENSCHOG0000000787250 retrocopies
Callithrix jacchus ENSCJAG000000047794 retrocopies
Echinops telfairi ENSETEG0000001132210 retrocopies
Felis catus ENSFCAG00000011342 43 retrocopies
Homo sapiens ENSG000002154721 retrocopy
Gorilla gorilla ENSGGOG000000266971 retrocopy
Latimeria chalumnae ENSLACG000000088351 retrocopy
Loxodonta africana ENSLAFG0000000556916 retrocopies
Macropus eugenii ENSMEUG0000001670926 retrocopies
Microcebus murinus ENSMICG0000001710214 retrocopies
Macaca mulatta ENSMMUG0000001883726 retrocopies
Mustela putorius furoENSMPUG000000008017 retrocopies
Procavia capensis ENSPCAG000000031038 retrocopies
Pongo abelii ENSPPYG0000000915143 retrocopies
Pteropus vampyrus ENSPVAG0000000196976 retrocopies
Sarcophilus harrisii ENSSHAG0000000306014 retrocopies
Sus scrofa ENSSSCG0000002964230 retrocopies
Tarsius syrichta ENSTSYG0000000740220 retrocopies
Tursiops truncatus ENSTTRG0000000579731 retrocopies
Vicugna pacos ENSVPAG000000095681 retrocopy



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