RetrogeneDB ID: retro_cjac_2832

Retrocopy location

• Organism: Marmoset (Callithrix jacchus)
• Coordinates: 6:98788744..98788897(-)
• Located in intron of: ENSCJAG00000018447

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCJAG00000031137
• Aliases: None
• Description: None

Sequence

>retro_cjac_2832
ACCCACACACTCTCTCACACTCATACACGCCCTCATACATGCACATTCAGACACACACACACTCATACACACACCCAGAA
ACACAGAGTCATATACACATTGTACACACACACACACACACACACCCATACACACATTTCTACACACAAACAC

Alignment

ORF - retro_cjac_2832 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.85 %
• Parental protein coverage: 78.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  THTHTHTHTYFTYRFTHTHTHTHTHAHTHEMVTPTHTHTHTHTHTRLCTHAH
          THT..HTHT......T..HTHTHTH...H.......THTHTHTHT...TH.H
Retrocopy THTLSHTHTR-PHTCTFRHTHTHTHTQKHRVIYTLYTHTHTHTHTHISTHKH

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
SRP051959_colon	0.00 RPM	0.02 RPM
SRP051959_heart	0.00 RPM	0.23 RPM
SRP051959_kidney	0.00 RPM	0.09 RPM
SRP051959_liver	0.00 RPM	0.02 RPM
SRP051959_lung	0.00 RPM	0.44 RPM
SRP051959_lymph_node	0.00 RPM	0.00 RPM
SRP051959_skeletal_muscle	0.00 RPM	0.02 RPM
SRP051959_spleen	0.00 RPM	0.17 RPM

ChIP-Seq

Callithrix jacchus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cjac_2832 retrocopy.

TSS

Callithrix jacchus was not studied using FANTOM5 data.

Lab

retro_cjac_2832 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cjac_2832 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000031137	4 retrocopies	retro_cjac_2510, retro_cjac_2604, retro_cjac_2832 , retro_cjac_3046,