RetrogeneDB ID: retro_fcat_869

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B3:127854970..127855486(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF346
• Ensembl ID: ENSFCAG00000027865
• Aliases: None
• Description: zinc finger protein 346 [Source:HGNC Symbol;Acc:16403]

Sequence

>retro_fcat_869
ATGGAGTGTCCCACGTTGGGCAATGTGGAGGTTAAGGACAGTGGAGGGGCCAGGCAATATGACAGCTCCCTAGCATCAAG
AAGGACAGAACAGGACGGGGTGCACCTAGACTGCTAGAGGACGTGCTTCCTGTGGGAAGCAGTGTCCTGGGCCCAACCAG
TGGGGAGGGAGGAATTGGAGCACATGATCCAGAAGAACCAGTGTCTCTTTATCAATACCCAATGTAAGGTTTGCTGTGCC
TCACTCATTTCTGAGTCCCACAAGCTGACACACTATTAGGGCAAAAAACATGCCAACAAAGTGAAGTGACACCTAGCAGT
CCATGGAATGCAGACATTAAAGGGGGAAACAAAGAAGCTTGGCTCAGATCAGAAAAACAGCAGAAGCAAAGACAAGAACC
AGTGCTGCCCCATTTGTCACATGACCTTTTCCTCCCCTCTTCTGGCCCAAGACAGCTGGGGAAGACACCCAAAGAACTGA
AAGTTGAAGCAGCAATCCACTAAGGTGGAAACCTTG

Alignment

ORF - retro_fcat_869 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.26 %
• Parental protein coverage: 56.13 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEYTALGTVEAADSGGALPYNSSEEREGREPDGLRFDRERARRLWEAVSGAQPVGREEVEHMIQKNQCLF
          ME...LG.VE..DSGGA..Y.SS......E.DG...D..R...LWEAVS.AQPVGREE.EHMIQKNQCLF
Retrocopy MECPTLGNVEVKDSGGARQYDSSLASRRTEQDGVHLDC*RTCFLWEAVSWAQPVGREELEHMIQKNQCLF

Parental  TNTQCKVCCALLISESQKLAHYQSKKHANKVKRYLAIHGMETLKGETKKLDSDQKNSRSKDKNQCCPICN
          .NTQCKVCCA.LISES.KL.HY..KKHANKVK..LA.HGM.TLKGETKKL.SDQKNSRSKDKNQCCPIC.
Retrocopy INTQCKVCCASLISESHKLTHY*GKKHANKVK*HLAVHGMQTLKGETKKLGSDQKNSRSKDKNQCCPICH

Parental  MTFSSPVVAQSHYLGKTHAKNLKLKQQSTKVEAL
          MTFSSP..AQ.......H.KN.KLKQQSTKVE.L
Retrocopy MTFSSPLLAQDSW--GRHPKN*KLKQQSTKVETL

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	49.01 RPM
SRP017611_kidney	0.00 RPM	25.56 RPM
SRP017611_liver	0.00 RPM	10.72 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_869 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_869 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016541	2 retrocopies	retro_cfam_1921, retro_cfam_824,
Felis catus	ENSFCAG00000027865	1 retrocopy	retro_fcat_869 ,
Mustela putorius furo	ENSMPUG00000012295	1 retrocopy	retro_mputfur_271,