RetrogeneDB ID: retro_fcat_795

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:124228531..124228885(-)
• Located in intron of: ENSFCAG00000001813

Retrocopy information

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

Parental gene information

• Parental gene symbol: RHOQ
• Ensembl ID: ENSFCAG00000015608
• Aliases: None
• Description: ras homolog family member Q [Source:HGNC Symbol;Acc:17736]

Sequence

>retro_fcat_795
GAACACTATGGTCATCTGAGGCCTGTATCTTATGCAGTGCGTGATGTCTTCCTTATATGCTTCTCTGTGACCTTATTTCG
AAATGTGAAAGAGGAGTGGGCATCAGAACTTAGGGAACACACACTAAATGTGCCTCGTTTAGTAGGAACTCAGACTGATC
TTCAAGGTGAGCCCCAAAACTTTAGCAAAACTGAATAATATGAAAGAAAATCTTGTTTATATGTAGAACAGGGACAGAAA
CTAGCAAGAGACAGGGGCCACCATGTGGAAAGTTCAACTTTAACCCAGAAGGGATTGAAGACAGTGTTTGATGAGGCTGT
TGTAGCCATTATAATTCCAGAGAAAAACACTGTG

Alignment

ORF - retro_fcat_795 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.84 %
• Parental protein coverage: 89.13 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLND
          E.Y..LRP.SY...DVFLICFSV.....F.NVKEEW..EL.E...NVP..L.GTQ.DL...P........
Retrocopy EHYGHLRPVSYAVRDVFLICFSVT---LFRNVKEEWASELREHTLNVP-RLVGTQTDLQGEPQNFSKTE*

Parental  MKEKP-ICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAILTPKKHTV
          ...K....VEQGQKLA...G....VE.S.LTQKGLKTVFDEA..AI..P.K.TV
Retrocopy YERKSCLYVEQGQKLARDRGH--HVESSTLTQKGLKTVFDEAVVAIIIPEKNTV

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	6.31 RPM
SRP017611_kidney	0.00 RPM	13.50 RPM
SRP017611_liver	0.00 RPM	1.11 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_795 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_795 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 14 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006082	1 retrocopy	retro_amel_383,
Choloepus hoffmanni	ENSCHOG00000000549	3 retrocopies	retro_chof_2030, retro_chof_457, retro_chof_914,
Erinaceus europaeus	ENSEEUG00000015226	1 retrocopy	retro_eeur_129,
Echinops telfairi	ENSETEG00000019234	3 retrocopies	retro_etel_1468, retro_etel_596, retro_etel_672,
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,
Myotis lucifugus	ENSMLUG00000001567	1 retrocopy	retro_mluc_595,
Pteropus vampyrus	ENSPVAG00000013691	1 retrocopy	retro_pvam_611,
Rattus norvegicus	ENSRNOG00000015415	1 retrocopy	retro_rnor_473,
Sus scrofa	ENSSSCG00000008439	1 retrocopy	retro_sscr_102,
Tursiops truncatus	ENSTTRG00000011892	1 retrocopy	retro_ttru_805,