RetrogeneDB ID: retro_fcat_282

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A1:186383022..186383477(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPS11
• Ensembl ID: ENSFCAG00000014967
• Aliases: None
• Description: mitochondrial ribosomal protein S11 [Source:HGNC Symbol;Acc:14050]

Sequence

>retro_fcat_282
ATGCAGGTGGTAGGAAGGATGGGCTCTTGGCCCTTGTGGTCATGGGCTTGGCTACCAATGCCCAGAGTTGTGGCCAGGGT
GCCCACCTCCATCATCCACACAGGCACCCAGCAGCTACAAGATGCAGTGGCCAAGCAGGAGGTTGAGGACAAAGGCGGTG
GCTCAGGCTTCGAAGAGCAGCAACTTTAGTCCCCCATTTCCAGGACAGGAATGTTCTCTAACATGGGCATGAAAGAAATT
CGAGGAGATCCCCATTGCATACATCAAAGCATCCTATAAAAACATGAAGATCCAGGTGGTCTCTGCCATGTGCCAGTCCC
TTGCTGGCACTTCCTGAGGCGCAGAGAGGTCCCAGAATGCCAGGAAAGTTGCGAGCATTGCTGCACAAACAGGGCTAAGT
GATGCGAGAAAGCTGAGGGAAGGGTGTGATCCATACCTCAGTGGTGGTAAAAGGC

Alignment

ORF - retro_fcat_282 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.76 %
• Parental protein coverage: 79.08 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MQVVRKTGSWLLWSWARSPTPGVVPGAPASTIRTGARQLQDAAAKQEVEEK-AAAPAPSRSSFSIYPPVP
          MQVV...GSW.LWSWA..P.P.VV...P.S.I.TG..QLQDA.AKQEVE.K.A.A.A...S.FS..PP.P
Retrocopy MQVVGRMGSWPLWSWAWLPMPRVVARVPTSIIHTGTQQLQDAVAKQEVEDK>AVAQASKSSNFS--PPFP

Parental  GQESPLRWAGKKFEEIPIAHIKASYNNTQIQVVSAAHQPLARASCGTEGFRNAKKGTGIAAQTAGIAAA-
          GQE..L.WA.KKFEEIPIA.IKASY.N..IQVVSA..Q.LA..S.G.E...NA.K...IAAQT.G...A.
Retrocopy GQECSLTWA*KKFEEIPIAYIKASYKNMKIQVVSAMCQSLAGTS*GAERSQNARKVASIAAQT-GLSDA<

Parental  AKAAGK-GVTHIRVVVKG
          .KA.G..GV.H..VVVKG
Retrocopy EKAEGR<GVIHTSVVVKG

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	7.46 RPM
SRP017611_kidney	0.00 RPM	8.35 RPM
SRP017611_liver	0.00 RPM	2.83 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_282 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_282 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000013012	2 retrocopies	retro_cjac_2601, retro_cjac_2989,
Felis catus	ENSFCAG00000014967	1 retrocopy	retro_fcat_282 ,
Homo sapiens	ENSG00000181991	1 retrocopy	retro_hsap_2458,
Gorilla gorilla	ENSGGOG00000015152	1 retrocopy	retro_ggor_1531,
Macaca mulatta	ENSMMUG00000013659	1 retrocopy	retro_mmul_637,
Nomascus leucogenys	ENSNLEG00000011441	1 retrocopy	retro_nleu_1902,
Ochotona princeps	ENSOPRG00000008247	1 retrocopy	retro_opri_540,
Pongo abelii	ENSPPYG00000006751	2 retrocopies	retro_pabe_1808, retro_pabe_2583,
Pan troglodytes	ENSPTRG00000007420	1 retrocopy	retro_ptro_1419,