RetrogeneDB ID: retro_fcat_697

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:38530745..38531100(+)
• Located in intron of: ENSFCAG00000000741

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM96B
• Ensembl ID: ENSFCAG00000029216
• Aliases: None
• Description: family with sequence similarity 96, member B [Source:HGNC Symbol;Acc:24261]

Sequence

>retro_fcat_697
GTCGTCTCTGAGCACTCTGGGGACACCTGGTAACTATGGACAAACAGGACAAGTAGGTTCCCAGCAGCGGTGGCGTGCAC
GGGACCTTTGATCTGATTTGCTCCGTCAGCGTCAGTGACCTGGAGCAGCCAGCGACGCTAGAAGTGAATGTAGTAGAGCA
AGTCCAGGTTCAGGGGAGCGACCCTGAGGACACAGTGGCCGTGGCCTTCACACCCCCCCTCCATACTGCAGCACGGCCAC
CCTTACTGGCCTGTCCATCACGGTCAAGCTTTTGTGATCCCTACCCCAGCTTTTCACAATGGACGTACACTTTACACCGG
GGTTTCGTTCCTTGGAGCTCGCGGTGTGCAAGCGA

Alignment

ORF - retro_fcat_697 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.38 %
• Parental protein coverage: 72.39 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LIYERSGE-RPVTAGEEDEQVPDSIDAREIFDLIRSIN--DPEHPLTLEELNVVEQVRVQVSDPESTVAV
          ...E.SG....VT....D..VP.S......FDLI.S....D.E.P.TLE..NVVEQV.VQ.SDPE.TVAV
Retrocopy VVSEHSGD<HLVTMDKQDK*VPSSGGVHGTFDLICSVSVSDLEQPATLE-VNVVEQVQVQGSDPEDTVAV

Parental  AFTPTI-PHCSMATLIGLSIKVKLLRSLPQRFKMDVHITPGTHASEHAVNKQ
          AFTP...P.CS.ATL.GLSI.VKLL.SLPQ.F.MDVH.TPG....E.AV.K.
Retrocopy AFTPPL<PYCSTATLTGLSITVKLL*SLPQLFTMDVHFTPGFRSLELAVCKR

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	12.51 RPM
SRP017611_kidney	0.10 RPM	26.80 RPM
SRP017611_liver	0.00 RPM	10.82 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_697 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_697 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017164	1 retrocopy	retro_amel_1340,
Bos taurus	ENSBTAG00000013931	1 retrocopy	retro_btau_609,
Canis familiaris	ENSCAFG00000020394	2 retrocopies	retro_cfam_479, retro_cfam_802,
Felis catus	ENSFCAG00000004178	1 retrocopy	retro_fcat_1379,
Felis catus	ENSFCAG00000029216	2 retrocopies	retro_fcat_1464, retro_fcat_697 ,
Mustela putorius furo	ENSMPUG00000005303	2 retrocopies	retro_mputfur_1547, retro_mputfur_302,
Mus musculus	ENSMUSG00000031879	1 retrocopy	retro_mmus_2927,
Sarcophilus harrisii	ENSSHAG00000004698	1 retrocopy	retro_shar_590,
Tarsius syrichta	ENSTSYG00000005006	2 retrocopies	retro_tsyr_1305, retro_tsyr_149,