RetrogeneDB ID: retro_fcat_1660

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: E1:10934409..10934871(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: JAZF1
• Ensembl ID: ENSFCAG00000023035
• Aliases: None
• Description: JAZF zinc finger 1 [Source:HGNC Symbol;Acc:28917]

Sequence

>retro_fcat_1660
ACGGACGCCACCCGCCGAGAGCCGGAGTCCCCAAAGAAGAAGATTCGACCGAAGCTCTCGCCGACCTTGTCCAGCTCAGT
GTCTTGAAGGAATATGTCCACCCCACCATGCCACCGCAGGGGAAGCCTCACTGCCCCCGTGACCCCACCCATCACCCCCT
CCTCTTCATTCTGCAGCAGCACTCCCAACGGGTAGAGGGCCGCCAGGAGGAGGTGGATTATGAAGAGCGGGACAGCGATG
AGCCCGCACCACGGAAAGCTCCGTCACGATGCTCTGAAGCCATCCTCAGCAACATGTGTGAGGACGGAGGAGAAGAGGAG
CCTTTCCCCTTCCGGGTTCCTGGATGTAAAAAGGTGAATGGCATAAACAGCACGCTAAGGATGCTCACAGAACCCAGATT
TGTGTCCGTAAACATTCAGATGTCCTTGTGGTCGGAGTTCCAAGACGGCGAGGGGCCTGCGG

Alignment

ORF - retro_fcat_1660 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.28 %
• Parental protein coverage: 88.27 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TDAARREQESLKKKIQPKLSLTLSSSVSRGNVSTPPRHSSGSLTPPVTPPITPSSSFRSSTPTG-SEYDE
          TDA.RRE.ES.KKKI.PKLS.TLSSSVS..N.STPP.H..GSLT.PVTPPITPSSSF.SSTP.G..E...
Retrocopy TDATRREPESPKKKIRPKLSPTLSSSVS*RNMSTPPCHRRGSLTAPVTPPITPSSSFCSSTPNG<VEGRQ

Parental  EEVDYEESDSDESWTTES-AISSEAILSSMCMNGGEEKPFACPVPGCKKRYKNVNGI-KYHAKNGHRTQI
          EEVDYEE.DSDE..........SEAILS.MC..GGEE.PF...VPGCKK....VNGI.K.HAK..HRTQI
Retrocopy EEVDYEERDSDEPAPRKAPSRCSEAILSNMCEDGGEEEPFPFRVPGCKK----VNGI<KQHAKDAHRTQI

Parental  RVRK-PFKCRCGKSYKTAQGLR
          .VRK..F.C.CG.S.KTA.GLR
Retrocopy CVRK<TFRCPCGRSSKTARGLR

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	73.57 RPM
SRP017611_kidney	0.00 RPM	3.30 RPM
SRP017611_liver	0.00 RPM	0.91 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1660 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1660 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003001	1 retrocopy	retro_cfam_1761,
Felis catus	ENSFCAG00000023035	1 retrocopy	retro_fcat_1660 ,
Otolemur garnettii	ENSOGAG00000029759	1 retrocopy	retro_ogar_770,