RetrogeneDB ID: retro_cjac_202

Retrocopy location

• Organism: Marmoset (Callithrix jacchus)
• Coordinates: 12:82156892..82157654(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCJAG00000022961
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: EIF2B3
• Ensembl ID: ENSCJAG00000004386
• Aliases: None
• Description: None

Sequence

>retro_cjac_202
GTCATTAAGGGATCCATCCTACAGAAGCACCCTAGAATACATTTCCACACAGGCCTTGTGGATGCCCACCTCTACTGCTT
GAAAAAATACGTTGTGGATTTCCTAATGGAAAATGGGTCAATCACTTCTATCCAGAGTGAACTGATTCCGTATCTAGTGA
GAAAACAGTTTTCCTCAGCTTTCTCACAACAGGGACAAGAAGAAAAAGAGGAAGATCTAAAGAAAAAGGAGCTGAAATCC
TTAGATATTTACAGTTTTATAAAAGAAGCCAATACACTGAACCTGGCTCCCTATGATGCCTGCTGGAATGCTTGTCGAGG
AGACAGGTGGGAAGACTTGTCCAGATCACAGGTGCGCTGCTACGTCCACATCATGAAAGAGGGGCTCTGCTCTCGAGTGA
GCACACTGGGACTCTACATGGAAGCAAACAGACAGGTGCCCAAATTGCTGTCTGCTCTCTGTCCAGAAGAACCACCGGTC
CACTCGTCAGCCCAGATTGTCAGCAAACACCTGGTTGGAGTTGACAGCCTCATCAGGCCAGATACACAGATTGGAGAGAA
GTCATCCATTAAGCGCTCAGTCATTGGTTCATCCTGTTTCATAAAAGATAGAGTGACGATTACCAATTGCCTTCTCATGA
ACTCAGTCACTGTGGAGGGAGGAAGGCAGCAACATCCAAGGCAGCATCATCTGCAACAATGCTGTGATCGAGAAGGGTAC
AGACATCAAGGACTGCTTGATTGGAAATGGCCAGAGGATTGA

Alignment

ORF - retro_cjac_202 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.19 %
• Parental protein coverage: 55.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VIKGSILQKHPRIHFHTGLVDAHLYCLKKYVVDFLMENGSITSIRSELIPYLVRKQFSSASSQQGQEEKE
          VIKGSILQKHPRIHFHTGLVDAHLYCLKKYVVDFLMENGSITSI.SELIPYLVRKQFSSA.SQQGQEEKE
Retrocopy VIKGSILQKHPRIHFHTGLVDAHLYCLKKYVVDFLMENGSITSIQSELIPYLVRKQFSSAFSQQGQEEKE

Parental  EDLKKKELKSLDIYSFIKEANTLNLAPYDACWNACRGDRWEDLSRSQVRCYVHIMKEGLCSRVSTLGLYM
          EDLKKKELKSLDIYSFIKEANTLNLAPYDACWNACRGDRWEDLSRSQVRCYVHIMKEGLCSRVSTLGLYM
Retrocopy EDLKKKELKSLDIYSFIKEANTLNLAPYDACWNACRGDRWEDLSRSQVRCYVHIMKEGLCSRVSTLGLYM

Parental  EANRQVPKLLSALCPEEPPVHSSAQIVSKHLVGVDSLIGPDTQIGEKSSIKRSVIGSSCFIKDRVTITNC
          EANRQVPKLLSALCPEEPPVHSSAQIVSKHLVGVDSLI.PDTQIGEKSSIKRSVIGSSCFIKDRVTITNC
Retrocopy EANRQVPKLLSALCPEEPPVHSSAQIVSKHLVGVDSLIRPDTQIGEKSSIKRSVIGSSCFIKDRVTITNC

Parental  LLMNSVTVEEG
          LLMNSVTVE.G
Retrocopy LLMNSVTVEGG

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	6.06 RPM
SRP051959_heart	0.02 RPM	8.12 RPM
SRP051959_kidney	0.02 RPM	6.48 RPM
SRP051959_liver	1.08 RPM	10.31 RPM
SRP051959_lung	0.00 RPM	5.30 RPM
SRP051959_lymph_node	0.00 RPM	5.98 RPM
SRP051959_skeletal_muscle	0.02 RPM	12.43 RPM
SRP051959_spleen	0.00 RPM	6.70 RPM

ChIP-Seq

Callithrix jacchus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cjac_202 retrocopy.

TSS

Callithrix jacchus was not studied using FANTOM5 data.

Lab

retro_cjac_202 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cjac_202 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004386	1 retrocopy	retro_cjac_202 ,