RetrogeneDB ID: retro_fcat_1794

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F2:398320..398570(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPP1R11
• Ensembl ID: ENSFCAG00000013592
• Aliases: None
• Description: protein phosphatase 1, regulatory (inhibitor) subunit 11 [Source:HGNC Symbol;Acc:9285]

Sequence

>retro_fcat_1794
GGGGCCCGGCTGAGTGAGACCTTCACTGAGAGAACTGAGCCAGAGAGACAGAGAGAGGACAGGAGCCTAACCATCAAACT
TCAGAAACAGAAGCCAGAGAAGATGGTAGAATGGACAAGTGACACTTGGACAACAAGCACATGGGGCGCCACCCATCAAA
GGCTGCTGTCATTCATGAGAAACCTAGGCATTTGGTGTGAGCTCCATGGAGAGTGATGAGGAAGAGAAGGACTGTGGTCT
TGCTGTGTGC

Alignment

ORF - retro_fcat_1794 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.64 %
• Parental protein coverage: 68.25 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GAGLSETVTETTVTVTTEPENRSLTIKLRKRKPEKKVEWTSDT-VDNEHMGRRSSKCCCIYEKPR-AFGE
          GA.LSET.TE.T.......E.RSLTIKL.K.KPEK.VEWTSDT..DN.HMGR..SK...I.EKPR.AFG.
Retrocopy GARLSETFTERTEP-ERQREDRSLTIKLQKQKPEKMVEWTSDT<LDNKHMGRHPSKAAVIHEKPR<AFGV

Parental  SSTESDEEEEEGCGHTHC
          SS.ESDEEE...CG...C
Retrocopy SSMESDEEEKD-CGLAVC

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	12.17 RPM
SRP017611_kidney	0.00 RPM	10.82 RPM
SRP017611_liver	0.00 RPM	5.26 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1794 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1794 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 12 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020710	1 retrocopy	retro_cjac_2880,
Felis catus	ENSFCAG00000013592	1 retrocopy	retro_fcat_1794 ,
Gorilla gorilla	ENSGGOG00000026830	1 retrocopy	retro_ggor_80,
Macropus eugenii	ENSMEUG00000006493	2 retrocopies	retro_meug_715, retro_meug_933,
Macaca mulatta	ENSMMUG00000012122	1 retrocopy	retro_mmul_359,
Monodelphis domestica	ENSMODG00000016021	1 retrocopy	retro_mdom_98,
Nomascus leucogenys	ENSNLEG00000004933	1 retrocopy	retro_nleu_2257,
Otolemur garnettii	ENSOGAG00000001598	1 retrocopy	retro_ogar_1458,
Pongo abelii	ENSPPYG00000029642	1 retrocopy	retro_pabe_492,
Pan troglodytes	ENSPTRG00000017915	1 retrocopy	retro_ptro_2969,
Pteropus vampyrus	ENSPVAG00000008330	1 retrocopy	retro_pvam_894,
Ictidomys tridecemlineatus	ENSSTOG00000003632	1 retrocopy	retro_itri_159,