RetrogeneDB ID: retro_fcat_1902

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: X:25952072..25952386(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WDR83OS
• Ensembl ID: ENSFCAG00000000463
• Aliases: None
• Description: WD repeat domain 83 opposite strand [Source:HGNC Symbol;Acc:30203]

Sequence

>retro_fcat_1902
GTATCTACTAACAGTATGCTGGACCCACAGGGGCTGAACAAAGTGCCGGGGTACAATCCCCCACAGAACCAGTGTAACCC
GGCCTTGGAGGACCTGACGCCGGCCTACATGAACCTGTTCGGCATTATCTTCAGCACGTGCAGCCTCGTGCCCAAGATGC
AGTGGTACGCCTGGGTCACCATCTTCTGCCCGTTCATCGGCGTGGCCAACGCCTAGAGCTCTGAGGACAGTGCACGGATG
ATGAGCAGCCATGCTGTCCCATCTCTGCCACGGTGATGTCCTATCTGCAGAACTCTCAGCCCATGACGCTCCCC

Alignment

ORF - retro_fcat_1902 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.43 %
• Parental protein coverage: 78.95 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSTNNMSDPRRPNKVLRYKPPPSECNPALDDPTPDYMNLLGMIFSMCGLMLKLKWCAWVAVYCSFISFAN
          .STN.M.DP...NKV..Y.PP...CNPAL.D.TP.YMNL.G.IFS.C.L..K..W.AWV...C.FI..AN
Retrocopy VSTNSMLDPQGLNKVPGYNPPQNQCNPALEDLTPAYMNLFGIIFSTCSLVPKMQWYAWVTIFCPFIGVAN

Parental  SRSSEDTKQMMSSFML-SISAVVMSYLQNPQPMTPP
          ..SSED...MMSS.....ISA.VMSYLQN.QPMT.P
Retrocopy A*SSEDSARMMSSHAV<PISATVMSYLQNSQPMTLP

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	18.94 RPM
SRP017611_kidney	0.00 RPM	27.31 RPM
SRP017611_liver	0.10 RPM	10.92 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1902 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1902 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000028908	2 retrocopies	retro_cfam_1489, retro_cfam_1951,
Callithrix jacchus	ENSCJAG00000005285	1 retrocopy	retro_cjac_133,
Echinops telfairi	ENSETEG00000019481	1 retrocopy	retro_etel_1133,
Felis catus	ENSFCAG00000000463	1 retrocopy	retro_fcat_1902 ,
Macropus eugenii	ENSMEUG00000014450	3 retrocopies	retro_meug_1695, retro_meug_1733, retro_meug_2081,
Mus musculus	ENSMUSG00000059355	2 retrocopies	retro_mmus_1327, retro_mmus_2061,
Pteropus vampyrus	ENSPVAG00000013403	1 retrocopy	retro_pvam_1464,
Sus scrofa	ENSSSCG00000013721	1 retrocopy	retro_sscr_488,
Tupaia belangeri	ENSTBEG00000001250	1 retrocopy	retro_tbel_2034,