RetrogeneDB ID: retro_fcat_1979

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: X:42528231..42528543(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CISD2
• Ensembl ID: ENSFCAG00000028054
• Aliases: None
• Description: CDGSH iron sulfur domain 2 [Source:HGNC Symbol;Acc:24212]

Sequence

>retro_fcat_1979
CCTGTCCCCGAGAGCATTATTAGGTTCACTCAGCTCACAGTTTCAGAATGGCTTTGGTTATTGCCTTTCCTTGGTATACT
TGTACTACTTGGCTACCTTGCAATTCGCCCATTTCTCCAGAAGGAAAAACAACAGGACAGCTTGATTAATCTTAAAATAC
AAAAGGAAAATCTCAAAGTGGTGAATGAAATAAACATTGAAGATTTGGGTCTCACTAAAGCAGCTTATTGTAGGTGTTCC
CATTCTAAGACGTTACCTGCCTGTGATAGTTCACATAATAAACACAATGTATTGACAGGAGGTAATGTGGGT

Alignment

ORF - retro_fcat_1979 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.9 %
• Parental protein coverage: 77.78 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PVPESITGFARLTVSEWLRLLPFLGVLALLGYLAVRPFLPKKKQQKDSLINLKIQKENPKVVNEINIEDL
          PVPESI..F..LTVSEWL.LLPFLG.L.LLGYLA.RPFL.K.KQQ.DSLINLKIQKEN.KVVNEINIEDL
Retrocopy PVPESIIRFTQLTVSEWLWLLPFLGILVLLGYLAIRPFLQKEKQQ-DSLINLKIQKENLKVVNEINIEDL

Parental  CLTKAAYCRCWRSKTFPACDGSHNKHNELTGDNVG
          .LTKAAYCRC..SKT.PACD.SHNKHN.LTG.NVG
Retrocopy GLTKAAYCRCSHSKTLPACDSSHNKHNVLTGGNVG

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	8.15 RPM
SRP017611_kidney	0.00 RPM	19.07 RPM
SRP017611_liver	0.00 RPM	12.33 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1979 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1979 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000010779	1 retrocopy	retro_cfam_1012,
Callithrix jacchus	ENSCJAG00000015530	1 retrocopy	retro_cjac_2668,
Felis catus	ENSFCAG00000028054	1 retrocopy	retro_fcat_1979 ,
Mus musculus	ENSMUSG00000028165	1 retrocopy	retro_mmus_2257,
Nomascus leucogenys	ENSNLEG00000026930	1 retrocopy	retro_nleu_1331,
Oryctolagus cuniculus	ENSOCUG00000013943	1 retrocopy	retro_ocun_1444,
Ictidomys tridecemlineatus	ENSSTOG00000001408	1 retrocopy	retro_itri_869,