RetrogeneDB ID: retro_fcat_1987

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: X:53133056..53133275(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNRF2
• Ensembl ID: ENSFCAG00000026521
• Aliases: None
• Description: zinc and ring finger 2 [Source:HGNC Symbol;Acc:22316]

Sequence

>retro_fcat_1987
GTACCCTCACATGAAATGGGTATGCATGATGTGATGTGTTGAAGAAAGCCAAGACTAAGCCATAATGAGGATGTACTGAG
TAAAGATGCTGGCCAGTGTGCAGTATGCTTGAAAAAATGCAGAGGGAGGTACTATAGCAGGGTTGCCTTGTCTATTCATA
TATCATTAAGGTTGCACTGGTTTAAAATAAATAGATCTTGCCCTGAGCATCTTTCAGAT

Alignment

ORF - retro_fcat_1987 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.49 %
• Parental protein coverage: 81.72 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VPSDEMDLHLVMCLTKPRITYNEDVLSKDAGECAICL-EELQ-QGDTIARLPCLCIY-HKGCIDEWFEVN
          VPS.EM..H.VMC..KPR...NEDVLSKDAG.CA.CL.E..Q..G.TIA.LP..C...H......WF..N
Retrocopy VPSHEMGMHDVMC*RKPRLSHNEDVLSKDAGQCAVCL<EKMQ<EGGTIAGLP--CLF<HISLRLHWFKIN

Parental  RSCPEHPSD
          RSCPEH.SD
Retrocopy RSCPEHLSD

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	3.44 RPM
SRP017611_kidney	0.00 RPM	14.33 RPM
SRP017611_liver	0.00 RPM	5.86 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1987 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1987 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
Cavia porcellus	ENSCPOG00000027612	1 retrocopy	retro_cpor_922,
Felis catus	ENSFCAG00000026521	1 retrocopy	retro_fcat_1987 ,