RetrogeneDB ID: retro_fcat_431

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A3:81485576..81485969(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAC3
• Ensembl ID: ENSFCAG00000011671
• Aliases: None
• Description: ras-related C3 botulinum toxin substrate 3 (rho family, small GTP binding protein Rac3) [Source:HGNC Symbol;Acc:9803]

Sequence

>retro_fcat_431
GACAACTACTCTGCCAATGTTATGGTGGATGGAAAACCGGTGAATCTGGGCTTATGGGATACAGCTGGACAAGAAGATTA
TGCCAGATGACGTCCCTTATCCTATCCGCAAACAGACGTATTCTTAATTTGGTATTCTCTCGTGAATCCTGCATCATTTG
AAAATGTTTGAGCAAAGTGGTACCCTGAACTGTGAAACCACTGTCCCAACGCCGCCATCATCTTGGTGGGAACTAAACTT
GACCTCAGGGACAACAAAGACACAACTGAGAAACTGAAGAAGTTGATTCTCATCACCTACCCGCAGGGTGTGGCCATGGC
TAAGGAGATTGATGCTGTAAAATATCTGGAGTGCTAGGTTCTCATGCAACTAGGCTTCAAGACAAGGTTTGAT

Alignment

ORF - retro_fcat_431 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.44 %
• Parental protein coverage: 85.81 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPH
          DNYSANVMVDGKPVNLGLWDTAGQEDY.R.RPLSYPQTDVFLI..SLV.PASFENV.AKWYPE...HCP.
Retrocopy DNYSANVMVDGKPVNLGLWDTAGQEDYAR*RPLSYPQTDVFLIWYSLVNPASFENV*AKWYPEL*NHCPN

Parental  TPILLVGTKLDLRDDKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFD
          ..I.LVGTKLDLRD.KDT.E.L..KKL..ITYPQG.AMA.EI..VKYLEC..L.Q.G.KT.FD
Retrocopy AAIILVGTKLDLRDNKDTTEKL--KKLILITYPQGVAMAKEIDAVKYLEC*VLMQLGFKTRFD

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	1.49 RPM	11.82 RPM
SRP017611_kidney	0.52 RPM	1.55 RPM
SRP017611_liver	0.81 RPM	0.00 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_431 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_431 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 9 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000012902	3 retrocopies	retro_etel_1565, retro_etel_1645, retro_etel_42,
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,
Macropus eugenii	ENSMEUG00000006196	1 retrocopy	retro_meug_201,
Tupaia belangeri	ENSTBEG00000007272	4 retrocopies	retro_tbel_1796, retro_tbel_2564, retro_tbel_4296, retro_tbel_9,
Takifugu rubripes	ENSTRUG00000016201	1 retrocopy	retro_trub_15,