RetrogeneDB ID: retro_fcat_1266

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C2:49172693..49172914(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PET100
• Ensembl ID: ENSFCAG00000023931
• Aliases: None
• Description: PET100 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:40038]

Sequence

>retro_fcat_1266
ATGGGGGTGAAGGTAGAGATGCTTCAGATGACACTCTACTTCGCTTCCCTGTAGCTATGTTCTAGATTGCCAGTCAGGCT
GGGTGGTTTGAGGATTATGTCATACAGCACAAGATGGAGCTGAGGCTACCTATGAAGGAGGACCAGCATAGAGAGCTAGG
ATTCAAAGACAGGATATGGAAGCAGCAGGAGGAGAAGGTCTGCACTGTCCAGAAGAGCTCC

Alignment

ORF - retro_fcat_1266 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.67 %
• Parental protein coverage: 98.63 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MGVKLEVFRMTLY-LTFPVAMFWIANQAEWFEDYVIQRKRELWPPEKRRELEE--FKERIRKQREEKLLR
          MGVK.E...MTLY.L.FPVAMF.IA.QA.WFEDYVIQ.K.EL..P.K.....E..FK.RI.KQ.EEK...
Retrocopy MGVKVEMLQMTLY<LRFPVAMF*IASQAGWFEDYVIQHKMELRLPMKEDQHRELGFKDRIWKQQEEKVCT

Parental  AARQS
          ....S
Retrocopy VQKSS

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	8.03 RPM
SRP017611_kidney	0.00 RPM	6.80 RPM
SRP017611_liver	0.00 RPM	3.54 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1266 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1266 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008524	2 retrocopies	retro_amel_591, retro_amel_878,
Equus caballus	ENSECAG00000008451	1 retrocopy	retro_ecab_606,
Felis catus	ENSFCAG00000023931	2 retrocopies	retro_fcat_1266 , retro_fcat_1752,
Gorilla gorilla	ENSGGOG00000027594	1 retrocopy	retro_ggor_1905,
Pan troglodytes	ENSPTRG00000039245	1 retrocopy	retro_ptro_120,