RetrogeneDB ID: retro_fcat_814

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B3:11655221..11655630(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: COX10
• Ensembl ID: ENSFCAG00000010334
• Aliases: None
• Description: cytochrome c oxidase assembly homolog 10 (yeast) [Source:HGNC Symbol;Acc:2260]

Sequence

>retro_fcat_814
GCGGTTCCAGAAGTTGCCCTTCTTACCTGAGGGGGTGGACCCACTCACGGGAGTGCTGGGGGTCCTCCACATCTTCCTGT
GTACCTGTTGCTGTACCCCATTAAAGAGGATCAGCATTGCCGACACGTGGGTCGGGGCCATTGTTGGGGCCACACCACCT
GTCGTGGGCTGGCCAGCAGCCACCTGAAGCCTTGACGCTGGAATGTTTCTCCTGGGAGGAATCCTCTACTCCTGCCTGCT
TCCCCATTTCAACACACTGAGTTGGGGCCTCTGCACAGACGACTCCCAAGGCTCCCATATGATGTCAGTCACCCACCCAG
CCCTGCGAAGGTGCACTGCCCTGTGCCACCGCCTGGCCTTGATCACACTGTCCTCGGCAGCCCCCATCCTGGATGTCACC
ACATGGACC

Alignment

ORF - retro_fcat_814 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.7 %
• Parental protein coverage: 60.99 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AVPGVALLT-WGVNPLTGALGVFNIFLYTCYYDPLRKVLLLGAGLGLASGMAPGL-RWTPAIWSPNTGAF
          AVP.VALLT..GV.PLTG.LGV..IFL.TC...PL..........G...G..P....W..A..S...G.F
Retrocopy AVPEVALLT>EGVDPLTGVLGVLHIFLCTCCCTPLKRISIADTWVGAIVGATPPVVGWPAAT*SLDAGMF

Parental  LLGGILYSWQFPHFNALSWGLREDYSRGGYCMMSVTHPALCRRVALRHCLALIGLSAAAPVLDVTTWT
          LLGGILYS...PHFN.LSWGL..D.S.G...MMSVTHPAL.R..AL.H.LALI.LS.AAP.LDVTTWT
Retrocopy LLGGILYSCLLPHFNTLSWGLCTDDSQGSH-MMSVTHPALRRCTALCHRLALITLSSAAPILDVTTWT

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP017611_brain	0.00 RPM	5.39 RPM
SRP017611_kidney	0.00 RPM	6.18 RPM
SRP017611_liver	0.00 RPM	5.05 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_814 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_814 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000015294	1 retrocopy	retro_btau_1425,
Canis familiaris	ENSCAFG00000017899	1 retrocopy	retro_cfam_1380,
Callithrix jacchus	ENSCJAG00000004522	1 retrocopy	retro_cjac_3938,
Felis catus	ENSFCAG00000010334	1 retrocopy	retro_fcat_814 ,
Otolemur garnettii	ENSOGAG00000007457	1 retrocopy	retro_ogar_606,