RetrogeneDB ID: retro_fcat_1016

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B4:31862633..31863057(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NT5C
• Ensembl ID: ENSFCAG00000031408
• Aliases: None
• Description: 5', 3'-nucleotidase, cytosolic [Source:HGNC Symbol;Acc:17144]

Sequence

>retro_fcat_1016
GACAAAGTGGCCAATATGTATGAAGCCCGAGGTTTTTTCTTAGACTTGGATCCTGTGCCTGGAGCCTTAGCAGCCATACA
GAGATGAAAACCAGGCAGGACATTGTGGTCTTCATCTGCACCAGCCGTCCAATGAAGTATGAACACTATGTGGGTGAGAA
GTCCTGCTGAGTGGACAATCACCTGGGGCCTTAGTTTGTGGAGTGAATTATCGTGATGGACAAGATGATGGTGTTGGGGG
ACCTGGTCACTGAAGACAAAGACACTATCTGAGGCCAAGAGGACACCCCAAGCAGGGAGCACATCTTGTTCACCTGCTAC
CACAACCAGTACCAGGCCCTGCCCCCCACAAGGAGACAGCAGCTCTCCTGGAGTGACACCTGGAGGGAGATCATAGACAG
CAAGCCAGGGGCAGGGACAGTGGA

Alignment

ORF - retro_fcat_1016 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.34 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DKVASVYEAPGFFLDLEPIPGALEALQ-EMNNMQDTEVFICTSPLTKYEHCVAEKYRWVENHLGPQFVER
          DKVA..YEA.GFFLDL.P.PGAL.A.Q.EM...QD..VFICTS...KYEH.V.EK...V.NHLGP.FVE.
Retrocopy DKVANMYEARGFFLDLDPVPGALAAIQ<EMKTRQDIVVFICTSRPMKYEHYVGEKSC*VDNHLGP*FVE*

Parental  IILTRDKTVVLGDLLIDDKDTIRGQEETPSWEHILFTCCHNQHLALPPTRRRLLSWSDNWREIIDSKRG-
          II...DK..VLGDL...DKDTI.GQE.TPS.EHILFTC.HNQ..ALPPTRR..LSWSD.WREIIDSK.G.
Retrocopy IIVM-DKMMVLGDLVTEDKDTI*GQEDTPSREHILFTCYHNQYQALPPTRRQQLSWSDTWREIIDSKPG<

Parental  GRDSG
          GRDSG
Retrocopy GRDSG

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	0.34 RPM
SRP017611_kidney	0.00 RPM	1.34 RPM
SRP017611_liver	0.00 RPM	1.31 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1016 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1016 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	ENSAMEG00000009175	1 retrocopy	retro_amel_1684,
Callithrix jacchus	ENSCJAG00000014578	1 retrocopy	retro_cjac_810,
Felis catus	ENSFCAG00000031408	2 retrocopies	retro_fcat_1016 , retro_fcat_606,
Homo sapiens	ENSG00000125458	2 retrocopies	retro_hsap_1441, retro_hsap_1442,
Gorilla gorilla	ENSGGOG00000004740	2 retrocopies	retro_ggor_1061, retro_ggor_1109,
Microcebus murinus	ENSMICG00000017488	1 retrocopy	retro_mmur_1088,
Mustela putorius furo	ENSMPUG00000013985	1 retrocopy	retro_mputfur_1352,
Nomascus leucogenys	ENSNLEG00000000601	2 retrocopies	retro_nleu_1083, retro_nleu_1416,
Pongo abelii	ENSPPYG00000008619	1 retrocopy	retro_pabe_1195,