RetrogeneDB ID: retro_fcat_901

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B3:63172551..63172890(-)
• Located in intron of: ENSFCAG00000025975

Retrocopy information

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

Parental gene information

• Parental gene symbol: C1orf50
• Ensembl ID: ENSFCAG00000012195
• Aliases: None
• Description: chromosome 1 open reading frame 50 [Source:HGNC Symbol;Acc:28795]

Sequence

>retro_fcat_901
CGGGTCGAGGAGGCTGATGAAGTCATCCGAGCAAATGCCACCAACAAAATAACAGTCGTAGCTGAGCAAATCCAACATTT
ATAAGAACCAGCCAGGAAGGTACTGGAAGATGCTCGCAGAGATGCTGACTTGCACCATGTAGCTTGTAATATAGTAAAAA
AACCTGGCAACATTTATTACCTTTATAAACGGGAGAGTGGTCAGCAGTATTTTTCTATTATTTCTCCAAAGGGGACAAGT
TGTCCATATGACCTCCTTGGCACCTGTAAGCTACAGCATGACTTGTCCTGGACTCCGTATGAGGATATTGAGAAGCATGA
TGCTAAAATCAGCATATTG

Alignment

ORF - retro_fcat_901 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.22 %
• Parental protein coverage: 57.58 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QVQKADEFIRANATNKLTVIAEQIQHLQEQARKVLEDARRDADLHHVACNI-KKPGNIYYLYKRESGQQY
          .V..ADE.IRANATNK.TV.AEQIQHL.E.ARKVLEDARRDADLHHVACNI.KKPGNIYYLYKRESGQQY
Retrocopy RVEEADEVIRANATNKITVVAEQIQHL*EPARKVLEDARRDADLHHVACNIVKKPGNIYYLYKRESGQQY

Parental  FSIISPKEWGTNCPHDFLGAYKLQHDLSWTPYEDIEKHDAKISIV
          FSIISPK..GT.CP.D.LG..KLQHDLSWTPYEDIEKHDAKISI.
Retrocopy FSIISPK--GTSCPYDLLGTCKLQHDLSWTPYEDIEKHDAKISIL

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	0.23 RPM	16.18 RPM
SRP017611_kidney	0.21 RPM	12.99 RPM
SRP017611_liver	0.20 RPM	9.30 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_901 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_901 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000012195	1 retrocopy	retro_fcat_901 ,
Sarcophilus harrisii	ENSSHAG00000014815	1 retrocopy	retro_shar_57,