RetrogeneDB ID: retro_fcat_1886

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: JH409002.1:1612..1897(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM65
• Ensembl ID: ENSFCAG00000026901
• Aliases: None
• Description: transmembrane protein 65 [Source:HGNC Symbol;Acc:25203]

Sequence

>retro_fcat_1886
CATATTGAGATGTCTATTGGAATTTTGGGGGAATATCAACTATGGCAGCTGCTGCTTTGGGAAATCTTGTGTCAGATTTA
TCTGGACTACAATTTGCAGGCCCGTTGAAGCTTTTGCTTCCAGATTAGGCTTGTCAGTTCCTGATTTTACACCAAAACAA
GTGGGCACGTGGCAAATACGTGTTAGTAGAAACATGGCAAAGCTGTTGGTGTGAGTATTCTAGGAATGTTTCCTTTGTTT
TTCTTTGGAAGAGGTGAAGAAGATTAAAAACTGGAAAAGAAAAAT

Alignment

ORF - retro_fcat_1886 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.49 %
• Parental protein coverage: 71.74 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  HIEMSIGIIL-GISTMAAAALGNLVSDLAGLGLAGY-VEALASRLGLSIPDLTPKQVDMWQTRVSTHF-G
          HIEMSIGI...GISTMAAAALGNLVSDL.GL..AG..VEA.ASRLGLS.PD.TPKQV..WQ.RVS....G
Retrocopy HIEMSIGILG<GISTMAAAALGNLVSDLSGLQFAGP<VEAFASRLGLSVPDFTPKQVGTWQIRVSRNM<G

Parental  KAVGVTIGCILGMFPLLFFGGGEEDEKLEKKN
          KAVGV.I...LGMFPL.FFG.GEED.KLEKKN
Retrocopy KAVGVSI---LGMFPLFFFGRGEED*KLEKKN

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	16.64 RPM
SRP017611_kidney	0.00 RPM	6.18 RPM
SRP017611_liver	0.00 RPM	1.31 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1886 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1886 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000026901	1 retrocopy	retro_fcat_1886 ,
Tupaia belangeri	ENSTBEG00000000828	1 retrocopy	retro_tbel_662,
Tarsius syrichta	ENSTSYG00000002828	1 retrocopy	retro_tsyr_1697,