RetrogeneDB ID: retro_fcat_1524

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D3:47597961..47598256(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: VIMP
• Ensembl ID: ENSFCAG00000028822
• Aliases: None
• Description: VCP-interacting membrane protein [Source:HGNC Symbol;Acc:30396]

Sequence

>retro_fcat_1524
CAAGAGGCTTTAGCAGCTGCTCATTTGAAAATGCCAGCGGAATTGAATGCACAAGTTGAAAAGTATAAGGAAAAACTAAG
ACAGCCTAAAGAACAAAAAAAGGAGACAGATGATTGAAATGTGGGACAGCATGTGAGGAGGAAAAAGTTACAAAGGAAAT
GCGAGAAAGCCTCCAGGAGAAGACATTCCTGGGCCTTCTACTTCATCAGTCATCCTGAAGCGAAAATCTGACAGAAAGCC
TTTGCAGGGAGGTGGTGACAACCCTTTGTCTGTTGCAGAAAGTGGAGCGTGCTCC

Alignment

ORF - retro_fcat_1524 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.76 %
• Parental protein coverage: 52.13 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QEALAAARLKMQEELNAQVEKHKEKLRQLEEQK-RRQKIEMWDSMQEGKSYKGNVRKPPEEDSAGPSTPS
          QEALAAA.LKM..ELNAQVEK.KEKLRQ..EQK.RRQ.IEMWDSM..GKSYKGN.RKPP.ED..GPST.S
Retrocopy QEALAAAHLKMPAELNAQVEKYKEKLRQPKEQK>RRQMIEMWDSM*GGKSYKGNARKPPGEDIPGPSTSS

Parental  VLPKRKPDRKPLRGGGYNPLSGEGGGACS
          V..KRK.DRKPL.GGG.NPLS....GACS
Retrocopy VILKRKSDRKPLQGGGDNPLSVAESGACS

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	20.20 RPM
SRP017611_kidney	0.00 RPM	38.23 RPM
SRP017611_liver	0.00 RPM	19.51 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1524 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1524 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.

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000007115	1 retrocopy	retro_amel_177,
Bos taurus	ENSBTAG00000000640	1 retrocopy	retro_btau_1044,
Dasypus novemcinctus	ENSDNOG00000010694	2 retrocopies	retro_dnov_207, retro_dnov_880,
Echinops telfairi	ENSETEG00000011401	1 retrocopy	retro_etel_2096,
Felis catus	ENSFCAG00000028822	1 retrocopy	retro_fcat_1524 ,
Pteropus vampyrus	ENSPVAG00000012873	1 retrocopy	retro_pvam_1334,