RetrogeneDB ID: retro_fcat_1131

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C1:142054093..142054318(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPP1R1A
• Ensembl ID: ENSFCAG00000010159
• Aliases: None
• Description: protein phosphatase 1, regulatory (inhibitor) subunit 1A [Source:HGNC Symbol;Acc:9286]

Sequence

>retro_fcat_1131
CAGATTCTCAGGCACCGCCCCACCTCTGCCACCCTCATGCTGACCAGTGACCAGTCATCCCCAGAGATAGATGAAGACTG
GATCCCCAACCTTCCTCTCAAGTCCATTTTGGCCATCTCTCCACAGCATTGGAAGAAGGTGAGGAGGACCACATCCACAA
TGAAAAATCCATCCCTAAAACTCAGGAGAGGGGCAGAGAGAAACCCATCACAGAGGAACCCTCAA

Alignment

ORF - retro_fcat_1131 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.67 %
• Parental protein coverage: 52.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QIRRRRPTPATLVLTSDQSSPEIDEDRIPNPLLKSTLSMSPRQRKKVTRTTPTMKELQMMVEHHLGQQQQ
          QI.R.RPT.ATL.LTSDQSSPEIDED.IPN..LKS.L..SP...KKV.RTT.TMK...............
Retrocopy QILRHRPTSATLMLTSDQSSPEIDEDWIPNLPLKSILAISPQHWKKVRRTTSTMKNPSLKLRRGAERNPS

Parental  GEEPE
          ...P.
Retrocopy QRNPQ

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	16.53 RPM
SRP017611_kidney	0.00 RPM	57.30 RPM
SRP017611_liver	0.00 RPM	16.17 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1131 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1131 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 6 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000010159	1 retrocopy	retro_fcat_1131 ,
Homo sapiens	ENSG00000135447	2 retrocopies	retro_hsap_1633, retro_hsap_896,
Gorilla gorilla	ENSGGOG00000008380	1 retrocopy	retro_ggor_1231,
Pongo abelii	ENSPPYG00000004608	1 retrocopy	retro_pabe_774,
Pan troglodytes	ENSPTRG00000005044	2 retrocopies	retro_ptro_1138, retro_ptro_619,
Tupaia belangeri	ENSTBEG00000001193	20 retrocopies	retro_tbel_1191, retro_tbel_1233, retro_tbel_1251, retro_tbel_1264, retro_tbel_138, retro_tbel_1881, retro_tbel_2036, retro_tbel_2437, retro_tbel_2574, retro_tbel_2720, retro_tbel_3243, retro_tbel_3316, retro_tbel_3377, retro_tbel_3380, retro_tbel_3414, retro_tbel_3426, retro_tbel_4551, retro_tbel_537, retro_tbel_669, retro_tbel_899,