RetrogeneDB ID: retro_fcat_606

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B1:29469651..29470023(-)
• 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_606
GACGAAGTGGCCAGTGTGTATGAGGTCCCAGGCTTTTCCCCAGACGCGGAGCGGATCCCTGGAGCCTCGGAAGCCGTGCG
GAGGTGGACGACATGCAGGACACCGAGGTCCCCGTGTGCACCGGCCCTCCGCTGAAGTGTGAACACTGCGGGCGAGAATT
AGCGCTGGCTGAGTGGGTGGAGAACCACCTGGAGCGCCAGTTCATGGACTGCACTATTCTGATGAGGGACAAGACGGTGG
GCTTGGGGACCTGCTGGTGGATGACAAGGACACCATCTGAGGCCAAGAGGAGACGCCAAGCTGGGAGCACATCTCGTTTG
CTTGCTGCCACAACCAGCACCCGGCCCCGCCCCCTTTAGGAGACAGCTGCTC

Alignment

ORF - retro_fcat_606 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.62 %
• Parental protein coverage: 86.01 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  DKVASVYEAPGFFLDLEPIPGALEALQ-EMNNMQDTEVFICTSPLTKYEHCVAEKY--RWVENHLGPQFV
          D.VASVYE.PGF..D.E.IPGA.EA...E...MQDTEV..CT.P..K.EHC..E.....WVENHL..QF.
Retrocopy DEVASVYEVPGFSPDAERIPGASEAVR<EVDDMQDTEVPVCTGPPLKCEHCGRELALAEWVENHLERQFM

Parental  ERIILTRDKTVVLG-DLLIDDKDTIRGQEETPSWEHILFTCCHNQHLALPPT-RRRLL
          ...IL.RDKTV.LG.DLL.DDKDTI.GQEETPSWEHI.F.CCHNQH.A.PP..RR.LL
Retrocopy DCTILMRDKTVGLG<DLLVDDKDTI*GQEETPSWEHISFACCHNQHPAPPPL<RRQLL

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_606 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_606 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,