RetrogeneDB ID: retro_fcat_1618

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D4:34836155..34836765(-)
• Located in intron of: ENSFCAG00000008249

Retrocopy information

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

Parental gene information

• Parental gene symbol: EGLN2
• Ensembl ID: ENSFCAG00000024463
• Aliases: None
• Description: egl nine homolog 2 (C. elegans) [Source:HGNC Symbol;Acc:14660]

Sequence

>retro_fcat_1618
TGGGGTATACAGGAGAACCAGGAAGAAGAGGCCATAGGGAAGGGCAGCATGGGCTGCAGCAGTGGCAATGGGGAGAATAG
TGTGGGGCTCACAGTGCGGGAGGAGGGACTACCCATCATGCCCAAGCACCTGGCCCTGGACTATACTGTATCCTGCAGCA
TCTGTATCAAGGAGAACTTCCTGGGGGCAGCACTGGATGGCCATGTGGTGGCTGCGGCAGAGGCCCTAAAGTAGAGTGGG
CACCAGCATGATGGGCAGCTAGTGAGCCAATGGGCTATTTCACCATGCAGCTTCTGTAGGGACCAGACTGCCTGGATAGA
AGGCCATGAGCCTAGCTGTCAAAGCACTGGGGTCCTCATGGCCCACATGGATGCTATAATCTGTCCCTATGTTGGGTGCT
AGGTGGCTATGTCATCCACAGGCACAATCAAGGCCATGGTGGTATGTTATTCAGTCAATAGGCTGTGGAACATGAAGCAT
GCTGACAATCCACATGGCAGTGGGCACTGCATCACCTGTTATCTATTACCTGAATCAGAACTGGGACATAAAGGTGCATG
GCAGGCTACTGCAATTCTTCCCTGAGAGCTGGACTGTGGTAACCAATATC

Alignment

ORF - retro_fcat_1618 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.38 %
• Parental protein coverage: 50.62 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  WARQENREAEAEGEGGMGCSSDSGEASAGL--REEVLPATPERLALDYIVPCMRYYGICVKDSFLGAALG
          W..QEN.E.EA.G.G.MGCSS..GE.S.GL..REE.LP..P..LALDY.V.C.....IC.K..FLGAAL.
Retrocopy WGIQENQEEEAIGKGSMGCSSGNGENSVGLTVREEGLPIMPKHLALDYTVSC----SICIKENFLGAALD

Parental  GCVLAEVEALKRSGRLRDGQLVSQRAIPPRSIRGDQIAWVEGHEPGCRSIGVLMAHVDAVIRHCAG-RLG
          G.V.A..EALK.SG...DGQLVSQ.AI.P.S...DQ.AW.EGHEP.C.S.GVLMAH.DA.I....G..LG
Retrocopy GHVVAAAEALK*SGHQHDGQLVSQWAISPCSFCRDQTAWIEGHEPSCQSTGVLMAHMDAIICPYVG<VLG

Parental  GYVIN-GRTKAMVACYPGNGLGYVRHVDNPHGDGRCITC-IYYLNQNWDVKVHGGLLQIFPEGRPVVANI
          GYVI..G..KAMV.CY..N.L....H.DNPHG.G.CITC.IYYLNQNWD.KVHG.LLQ.FPE...VV.NI
Retrocopy GYVIH>GTIKAMVVCYSVNRLWNMKHADNPHGSGHCITC>IYYLNQNWDIKVHGRLLQFFPESWTVVTNI

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	41.43 RPM
SRP017611_kidney	0.00 RPM	25.87 RPM
SRP017611_liver	0.00 RPM	20.12 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1618 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1618 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
Canis familiaris	ENSCAFG00000005079	1 retrocopy	retro_cfam_455,
Callithrix jacchus	ENSCJAG00000014887	1 retrocopy	retro_cjac_3275,
Felis catus	ENSFCAG00000024463	1 retrocopy	retro_fcat_1618 ,