RetrogeneDB ID: retro_fcat_1632

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D4:55886673..55887008(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAC1
• Ensembl ID: ENSFCAG00000011361
• Aliases: None
• Description: ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1) [Source:HGNC Symbol;Acc:9801]

Sequence

>retro_fcat_1632
TGTATTTCACTTGTGAGTCCTGCATCATTTGAAAATGTTCAAGTAAAGTGTTACCCTAAGGTGTAACACCACTGCCCCAA
CACACCAATTTTCCTGGTAGGGACTAACCTAGATCTCACAGACGACAAAGGCATGATTGAGAAACTGAAAGAGAAGAAGC
TGAGTCCCGTGATCCACCTGCAGGTTTTGGCCCTGGCTAAAGAGAGCAGCACTGTAAAATACCTGGAGGGCTCCACTCTC
ACTCACCAAGGCTTCAAGACAGTGTTTGATGAAGCTATTCAGCTGTTCTCTGTCCGGCTCCAGTCAAGACGAGAAAGAGA
AAATGTCTGCTGTTG

Alignment

ORF - retro_fcat_1632 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.45 %
• Parental protein coverage: 53.08 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  CFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIG
          C.SLVSPASFENV..K.YP.V.HHCPNTPI.LVGT.LDL.DDK..IEKLKEKKL.P....Q.LA.AKE..
Retrocopy CISLVSPASFENVQVKCYPKV*HHCPNTPIFLVGTNLDLTDDKGMIEKLKEKKLSPVIHLQVLALAKESS

Parental  AVKYLECSALTQRGLKTVFDEAIR-AVLCPPPVKKRKRKCLLL
          .VKYLE.S.LT..G.KTVFDEAI..AVLCP.PVK.RKRKCLLL
Retrocopy TVKYLEGSTLTHQGFKTVFDEAIQ<AVLCPAPVKTRKRKCLLL

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	92.74 RPM
SRP017611_kidney	0.00 RPM	32.57 RPM
SRP017611_liver	0.00 RPM	27.80 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1632 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1632 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 11 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000004853	4 retrocopies	retro_fcat_129, retro_fcat_1421, retro_fcat_1579, retro_fcat_896,
Felis catus	ENSFCAG00000011361	2 retrocopies	retro_fcat_1632 , retro_fcat_717,
Felis catus	ENSFCAG00000011671	1 retrocopy	retro_fcat_431,
Felis catus	ENSFCAG00000015608	1 retrocopy	retro_fcat_795,
Felis catus	ENSFCAG00000025776	2 retrocopies	retro_fcat_1064, retro_fcat_826,
Gorilla gorilla	ENSGGOG00000026733	2 retrocopies	retro_ggor_2110, retro_ggor_217,
Loxodonta africana	ENSLAFG00000012844	1 retrocopy	retro_lafr_818,
Myotis lucifugus	ENSMLUG00000009701	1 retrocopy	retro_mluc_1059,
Pan troglodytes	ENSPTRG00000018910	4 retrocopies	retro_ptro_1288, retro_ptro_3044, retro_ptro_3274, retro_ptro_36,
Tupaia belangeri	ENSTBEG00000007272	4 retrocopies	retro_tbel_1796, retro_tbel_2564, retro_tbel_4296, retro_tbel_9,
Xenopus tropicalis	ENSXETG00000027593	1 retrocopy	retro_xtro_1,