RetrogeneDB ID: retro_fcat_1489

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D2:60674880..60675409(+)
• Located in intron of: ENSFCAG00000014380

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM147
• Ensembl ID: ENSFCAG00000006373
• Aliases: None
• Description: transmembrane protein 147 [Source:HGNC Symbol;Acc:30414]

Sequence

>retro_fcat_1489
GAGTACAATGCCTTCTGGAAATGTGTGCAGACCAGGGTCACCCACCTCTTTGTGCAGCTGTGCAAGATGCTGTTTCTGGC
CACTTTTTTTTTCCTCACCTGGGAAGGCGGCATGTATGAGTTCATTGGGGAGTTCGTGAAGGCCAGCGTGGATGTGGTAG
ACCTGATAGGCCTAAACCTTGTCATGTCCCAGAATGCAGGCAAGGGGGAGTACAGGTCATGGGTGCTGCCTGGGGCTGGG
CCACCACCGTGCTCATTATGTCCCGCCACATCCCCCTCTGAGTGGGAGCCTAGGGCACTGAGTTTGACTGGAAGAACATC
CAGAAGAGCATGGACTCCAACTTTAGTCTGGTCCATTACATCGACACATCTGCCCAGGTCTAGATGATTGCACGCTATGA
CCTGTACCACACTTTTCAGCCAGCAGTACTCCTACTGGTGTTCTTTAGTGCTATAAGACCTTTGTCATAGAGATCTTTGT
CCACCTCTGTTCCCTGGACAGCTGTCCAGCCCTCAGCACCCTGGCCCTG

Alignment

ORF - retro_fcat_1489 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.74 %
• Parental protein coverage: 78.57 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EYNAFWKCVQAGVTYLFVQLCKMLFLATFFP-TWEGGIYDFIGEFMKASVDVADLIGLNLVMSRNAGKGE
          EYNAFWKCVQ..VT.LFVQLCKMLFLA.....TWEGG.Y.FIGEF.KASVDV.DLIGLNLVMS.NAGKGE
Retrocopy EYNAFWKCVQTRVTHLFVQLCKMLFLAXXXXLTWEGGMYEFIGEFVKASVDVVDLIGLNLVMSQNAGKGE

Parental  YK-IMVAALGWATAELIMSRCIPLWVGARGIEFDWKYIQMSIDSNISLVHYIVASAQVWMITRYDLYHTF
          Y...M.AA.GWAT..LIMSR.IPL.VGA.G.EFDWK.IQ.S.DSN.SLVHYI..SAQV.MI.RYDLYHTF
Retrocopy YR<VMGAAWGWATTVLIMSRHIPL*VGA*GTEFDWKNIQKSMDSNFSLVHYIDTSAQV*MIARYDLYHTF

Parental  RPAVLLLMFLSV-YKAFVMETFVHLCSLGSWTALLARAV
          .PAVLLL.F.S..YK.FV.E.FVHLCSL.S..AL...A.
Retrocopy QPAVLLLVFFSA<YKTFVIEIFVHLCSLDSCPALSTLAL

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	34.20 RPM
SRP017611_kidney	0.00 RPM	84.20 RPM
SRP017611_liver	0.00 RPM	27.40 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1489 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1489 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000010132	1 retrocopy	retro_acar_105,
Ailuropoda melanoleuca	ENSAMEG00000000375	1 retrocopy	retro_amel_1193,
Bos taurus	ENSBTAG00000015920	1 retrocopy	retro_btau_1546,
Canis familiaris	ENSCAFG00000006960	2 retrocopies	retro_cfam_1070, retro_cfam_1265,
Dasypus novemcinctus	ENSDNOG00000004059	1 retrocopy	retro_dnov_1123,
Felis catus	ENSFCAG00000006373	2 retrocopies	retro_fcat_1489 , retro_fcat_224,
Myotis lucifugus	ENSMLUG00000016383	1 retrocopy	retro_mluc_1889,
Mustela putorius furo	ENSMPUG00000006709	1 retrocopy	retro_mputfur_588,
Tarsius syrichta	ENSTSYG00000008207	1 retrocopy	retro_tsyr_56,
Tursiops truncatus	ENSTTRG00000015114	2 retrocopies	retro_ttru_1406, retro_ttru_219,