RetrogeneDB ID: retro_fcat_390

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A2:100935852..100936180(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANAPC16
• Ensembl ID: ENSFCAG00000010368
• Aliases: None
• Description: anaphase promoting complex subunit 16 [Source:HGNC Symbol;Acc:26976]

Sequence

>retro_fcat_390
ATAGCTGCCTCTTCATCATCCTCCTCAGCTGCTGGGGTCATTGGAAGTTCTGTCACTGGATCTGGTGTCAGTGTCTCAGA
CCTTGCCCCACCACGGAAAGCCCTTTTCACCTACCCCAAGGGAGCTGGAGAGATGTTGGAAGATGGCTCTGAGAGATTCC
TCTGCAAAATCTGTTTTCAGTTACCAAGTGACATCTGTGCTTAAACAGGTGAAAGATGATCAGCAAGTTGCTCGGATGAA
AAAATTAGCTGGTTTGGTAGAAGAGCTGGAGGCGGATGAGTGGTGGTTTAAACCCATTGAGCAGCTGCTGGTGTTCACAT
CCTCTTCA

Alignment

ORF - retro_fcat_390 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.18 %
• Parental protein coverage: 99.09 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAASSSSSSAGGVSGSSVTGSGFSVSDLAPPRKALFTYPKGAGEMLEDGSERFLC-ESVFSYQVASTLKQ
          .AASSSSSSA.GV.GSSVTGSG.SVSDLAPPRKALFTYPKGAGEMLEDGSERFLC..SVFSYQV.S.LKQ
Retrocopy IAASSSSSSAAGVIGSSVTGSGVSVSDLAPPRKALFTYPKGAGEMLEDGSERFLC>KSVFSYQVTSVLKQ

Parental  VKHDQQVARMEKLAGLVEELEADEWRFKPIEQLLGFTPSS
          VK.DQQVARM.KLAGLVEELEADEW.FKPIEQLL.FT.SS
Retrocopy VKDDQQVARMKKLAGLVEELEADEWWFKPIEQLLVFTSSS

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	0.11 RPM	5.62 RPM
SRP017611_kidney	0.41 RPM	13.91 RPM
SRP017611_liver	0.10 RPM	5.86 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_390 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_390 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000014902	1 retrocopy	retro_eeur_78,
Felis catus	ENSFCAG00000010368	1 retrocopy	retro_fcat_390 ,
Microcebus murinus	ENSMICG00000004229	1 retrocopy	retro_mmur_2,
Oryctolagus cuniculus	ENSOCUG00000016767	1 retrocopy	retro_ocun_1674,
Otolemur garnettii	ENSOGAG00000008215	3 retrocopies	retro_ogar_1022, retro_ogar_1187, retro_ogar_135,