RetrogeneDB ID: retro_fcat_867

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B3:126749147..126749595(+)
• Located in intron of: ENSFCAG00000011083

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF103
• Ensembl ID: ENSFCAG00000013620
• Aliases: RNF103, CHMP3
• Description: ring finger protein 103 [Source:HGNC Symbol;Acc:12859]

Sequence

>retro_fcat_867
GCTGTGAGCAAGCTCTATGCTTCCAATGCTCACGTGAACTCCGTGCTCATAGGGATGAAGAACCAGCTGGTGGTTTTGCG
AGTGGCTGGTTCCCTGCAAAAGAGCAAAGAAGTGATGAAGGCCATGCAGAGCCTTGTGAAGATCCCAGAAATCCAGGCCA
CCATGAGGGAGCTATCCAAAGAGATGATGAAGGCTGGCATCATAGAAGAAATGTTAGAAGATACTTTTTGAAAGCATGGA
TGATCAGGAAGAAATGGAAGAAGCAGCAGAAATGGAAGTTGACAAAATTCTGTTTGAAATCACAACAGGTGCCTTGGGCA
AAGCACCTAGTAAAGTGACCGATGCCTTCCCGGAGCCCAGACCTTCAGGAGCAATGGCTGCATCAGAAGATGAGGAGGAA
GAAGAGGCCCTGGAGGCCATGCAGTCCCATCTTGCCACACTCTGCAGC

Alignment

ORF - retro_fcat_867 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92. %
• Parental protein coverage: 59.6 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AVSKLYASKAHMNSVLMGMKNQLAVLRVAGSLQKSTEVMKAMQSLVKIPEIQATMRELSKEMMKAGIIEE
          AVSKLYAS.AH.NSVL.GMKNQL.VLRVAGSLQKS.EVMKAMQSLVKIPEIQATMRELSKEMMKAGIIEE
Retrocopy AVSKLYASNAHVNSVLIGMKNQLVVLRVAGSLQKSKEVMKAMQSLVKIPEIQATMRELSKEMMKAGIIEE

Parental  MLEDTF-ESMDDQEEMEEAAEMEIDKILFEITAGALGKAPSKVTDALPEPEPSGAMAASEDEEEEEALEA
          MLEDTF.ESMDDQEEMEEAAEME.DKILFEIT.GALGKAPSKVTDA.PEP.PSGAMAASEDEEEEEALEA
Retrocopy MLEDTF>ESMDDQEEMEEAAEMEVDKILFEITTGALGKAPSKVTDAFPEPRPSGAMAASEDEEEEEALEA

Parental  MQSRLATLRS
          MQS.LATL.S
Retrocopy MQSHLATLCS

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	68.29 RPM
SRP017611_kidney	0.10 RPM	84.40 RPM
SRP017611_liver	0.00 RPM	56.71 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_867 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_867 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000013620	1 retrocopy	retro_fcat_867 ,