RetrogeneDB ID: retro_fcat_733

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:126535624..126535973(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GLRX2
• Ensembl ID: ENSFCAG00000025580
• Aliases: None
• Description: glutaredoxin 2 [Source:HGNC Symbol;Acc:16065]

Sequence

>retro_fcat_733
ATGGGGAACAGCACATCATCATCTTTGGCGAAGTTAGCAACCCCATAAATCAGATTCTCTCGAACTAACAATTTCTGATA
ATTGAGTAGTGATTTTCTCAAAAACATCTTGTTCTTACTGTACAATGGCAAAAAAAANNNNNNNNNNNNNNNNNNNNAAT
GTTAACTATAACGTGGTGGAATTGAACATGCTTGAATATGGAAGTCAATTTCAAGATGCTCTCTACAAAATGACTTGTGA
AAGAACTGTACCAAGAATATTTGTCAATGGACCTTTTATTGGAGGTGCAACTGACACTCATAGTCATCAAAAAGATGGGA
AATTGCTTCCACTAGTTCATCATTATTAT

Alignment

ORF - retro_fcat_733 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.79 %
• Parental protein coverage: 91.87 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MGNST-SSSLNSATAPV-NQIQETISDNCVVIFSKTSCSYCTMAKKLFHDM--NVNYKVVELDMLEHGSQ
          MGNST.SS....AT.........TISDN.VVIFSKTSCSYCTMAKK.......NVNY.VVEL.MLE.GSQ
Retrocopy MGNSTSSSLAKLATP*I>DSLELTISDN*VVIFSKTSCSYCTMAKKXXXXXXXNVNYNVVELNMLEYGSQ

Parental  FQDALYKMTGERTVPRIFVNGTFIGGATDTHRLHKEGKLLPLVHQCY
          FQDALYKMT.ERTVPRIFVNG.FIGGATDTH...K.GKLLPLVH..Y
Retrocopy FQDALYKMTCERTVPRIFVNGPFIGGATDTHSHQKDGKLLPLVHHYY

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	39.71 RPM
SRP017611_kidney	0.00 RPM	43.59 RPM
SRP017611_liver	0.10 RPM	29.82 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_733 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_733 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000015972	1 retrocopy	retro_btau_543,
Choloepus hoffmanni	ENSCHOG00000007274	1 retrocopy	retro_chof_2375,
Callithrix jacchus	ENSCJAG00000008562	1 retrocopy	retro_cjac_643,
Equus caballus	ENSECAG00000015376	1 retrocopy	retro_ecab_169,
Felis catus	ENSFCAG00000025580	1 retrocopy	retro_fcat_733 ,
Myotis lucifugus	ENSMLUG00000015734	1 retrocopy	retro_mluc_1008,
Tupaia belangeri	ENSTBEG00000011216	1 retrocopy	retro_tbel_1638,
Drosophila melanogaster	FBgn0036820	1 retrocopy	retro_dmel_4,