RetrogeneDB ID: retro_cfam_597

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: 14:20173157..20173542(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LGALS7
• Ensembl ID: ENSCAFG00000024191
• Aliases: LGALS7B, LGALS7, galectin-7
• Description: None

Sequence

>retro_cfam_597
CCTCACTGTCCAGCCAAAGCAGGGAGCTCTAATGTGCCCCACAGGACCTCGCTGCCCAAGGGCATCCTAGTGGGCATTGT
GATGAGAGTTTGTCATGTTGTCCTAAACAAAGCTGGTGGGTTCCATGTGAACCTATTCTGCGGTGAGGAGCAGAATGTTG
AGGCTGCCCTGCATTTCAGTCCCCACCTGGACCAATTCATGGTGGTTGTTCAATACCCTGGAGCAGGGCACCTGGGGCTG
AGAGGAGTGTGGCTTAAGCATTTCCTTCTAGCACAGGCAGTCCTTGGAAGTGTTCCTCATCGCCACTGAAGAAGGGTTCA
AGGCTATGGCCGGCGACTCCAAGTACCACCCATTCCTCTACCAGTCCCTGCCTCTGCCTCTTAGA

Alignment

ORF - retro_cfam_597 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.02 %
• Parental protein coverage: 65.98 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PRSPAMAGSSNVPHKTSLPEGIRVGTVMRIRGVVPNKAGRFYVNLLCGEAPGSEAALHFNPRLDESTVV-
          P..PA.AGSSNVPH.TSLP.GI.VG.VMR...VV.NKAG.F.VNL.CGE....EAALHF.P.LD...VV.
Retrocopy PHCPAKAGSSNVPHRTSLPKGILVGIVMRVCHVVLNKAGGFHVNLFCGEEQNVEAALHFSPHLDQFMVV>

Parental  FNTLEQGAWGREERGTGIPFQRGQPFDVLLIATDEGFKAVVGDSEYHHFRYRIPPARVR
          FNTLEQG.WG.EE.G..I.F...Q...V.LIAT.EGFKA..GDS.YH.F.Y...P...R
Retrocopy FNTLEQGTWG*EECGLSISF*HRQSLEVFLIATEEGFKAMAGDSKYHPFLYQSLPLPLR

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
SRP012049_cerebellum	0.00 RPM	0.00 RPM
SRP017611_brain	0.00 RPM	0.00 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_597 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_597 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_597 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009910	1 retrocopy	retro_amel_785,
Canis familiaris	ENSCAFG00000015013	1 retrocopy	retro_cfam_2018,
Canis familiaris	ENSCAFG00000024191	1 retrocopy	retro_cfam_597 ,
Felis catus	ENSFCAG00000024418	1 retrocopy	retro_fcat_838,