RetrogeneDB ID: retro_fcat_885

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B3:20286526..20286909(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CBR4
• Ensembl ID: ENSFCAG00000030280
• Aliases: None
• Description: carbonyl reductase 4 [Source:HGNC Symbol;Acc:25891]

Sequence

>retro_fcat_885
GGCTCCCAGAGCATTGGCAGGGCAGTGGCCCAATTAATGGCCCAGAAACGCTACTGATTGGCCATCATTTCCAGGAATCT
GGAAGTGGCCAAAGCCACTGGCCCTGGTGACCTTGGTGGAGATCTTTTGGTATTTAGCTATGATGCTGCCAAAAAACATG
AGGTTCAAAATACACTTGAAGAGATGGAGAAAAACTTAGATCGAGTTTATTTCTTGGTAAATGCAGCTAGAATGAACAGG
GATAGCCTTTTAGAAAGAACAAAGCCTGAAGATATGACATCTCAGCTCATACTAATCTCTTGGGTTCCATGCTGACTTGT
AAAGCTGCCATGAAGACTATGATTCAACAACCAAGAAGCCCTCTTGTTAATATAGCACATATT

Alignment

ORF - retro_fcat_885 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.64 %
• Parental protein coverage: 52.05 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GSRGIGRAVAQLMAQKGYRLAIIARNLELAKAAA-GDLGGDHLAFSCDVAKECDVQNTFEKMEKNLGRVN
          GS..IGRAVAQLMAQK.Y.LAII.RNLE.AKA...GDLGGD.L.FS.D.AK...VQNT.E.MEKNL.RV.
Retrocopy GSQSIGRAVAQLMAQKRY*LAIISRNLEVAKATGPGDLGGDLLVFSYDAAKKHEVQNTLEEMEKNLDRVY

Parental  FLVNAAGINRDSLLVRTKTEDMVSQL-HTNLLGSMLTCKAALKTMIQQQRGSIVNVGSI
          FLVNAA..NRDSLL.RTK.EDM.SQL.HTNLLGSMLTCKAA.KTMIQQ.R...VN...I
Retrocopy FLVNAARMNRDSLLERTKPEDMTSQL<HTNLLGSMLTCKAAMKTMIQQPRSPLVNIAHI

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	9.76 RPM
SRP017611_kidney	0.00 RPM	35.55 RPM
SRP017611_liver	0.00 RPM	32.96 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_885 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_885 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013400	1 retrocopy	retro_amel_1352,
Canis familiaris	ENSCAFG00000007520	1 retrocopy	retro_cfam_1341,
Felis catus	ENSFCAG00000013899	1 retrocopy	retro_fcat_1827,
Felis catus	ENSFCAG00000030280	1 retrocopy	retro_fcat_885 ,
Oryctolagus cuniculus	ENSOCUG00000006446	1 retrocopy	retro_ocun_1883,
Tursiops truncatus	ENSTTRG00000000258	1 retrocopy	retro_ttru_1855,