RetrogeneDB ID: retro_fcat_1374

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C2:136124782..136125071(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPS19BP1
• Ensembl ID: ENSFCAG00000029275
• Aliases: None
• Description: ribosomal protein S19 binding protein 1 [Source:HGNC Symbol;Acc:28749]

Sequence

>retro_fcat_1374
CCAGGCCAGGCCAAGCCCAATGGGGCTCCAGTGAAGCGCAGCCAGAAAGCAAAGGCAACCCAAGCCCAGAAACACGCAGA
ATTCAGCCAAGGGAAAGGTGCCCAAGTTGGCATTTGCTGAGTTCCAGAAGCAAGAGTGTCAAGACTACCTCGGAGTAAAC
CTGAAGTTTATAACCAGTGTTTAAAGCACAGTGGCTGAGTCAGTCACTCAGCAGATTGTGGGCCAGAACTAGGGCTGTAA
GGCCTGTGACCAGCCTGTGGCCAAGATGAAGAAGAAGGTAGCTGAGGAA

Alignment

ORF - retro_fcat_1374 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.35 %
• Parental protein coverage: 68.57 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PGQAKPSGAPVKRTRKAKATQAQK-LRNSAKGKVPKSALAEFQKRECQSYLGVNLKFMTSARSTVAESVT
          PGQAKP.GAPVKR..KAKATQAQK...NSAKGKVPK.A.AEFQK.ECQ.YLGVNLKF.TS..STVAESVT
Retrocopy PGQAKPNGAPVKRSQKAKATQAQK>TQNSAKGKVPKLAFAEFQKQECQDYLGVNLKFITSV*STVAESVT

Parental  QQIVRQNRGRKACDRPVAKTKKKKKAE
          QQIV.QN.G.KACD.PVAK.KKK...E
Retrocopy QQIVGQN*GCKACDQPVAKMKKKVAEE

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	5.85 RPM
SRP017611_kidney	0.00 RPM	9.58 RPM
SRP017611_liver	0.00 RPM	2.12 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1374 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1374 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
Ailuropoda melanoleuca	ENSAMEG00000010936	1 retrocopy	retro_amel_1552,
Erinaceus europaeus	ENSEEUG00000009817	1 retrocopy	retro_eeur_3,
Felis catus	ENSFCAG00000029275	1 retrocopy	retro_fcat_1374 ,