RetrogeneDB ID: retro_cjac_2823

Retrocopy location

• Organism: Marmoset (Callithrix jacchus)
• Coordinates: 6:83941350..83941857(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCJAG00000022853
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NAA50
• Ensembl ID: ENSCJAG00000020261
• Aliases: None
• Description: N(alpha)-acetyltransferase 50, NatE catalytic subunit [Source:HGNC Symbol;Acc:29533]

Sequence

>retro_cjac_2823
ATGAAAGGTAGCCGGATCGAGTTGGGAGATGTGACACCACACAATATTAAACAGTTGAAAAGATTGAATCAGGTCATCTT
TCCAGTCAGCTGCAATGACAAGTTCTACAAGGATGTGCTGGAGGTTGGCGAGCTAGCAAAACTTGCCTGTTTCAATGATA
TTGCTGTAGGTGCGGTATGCTGTAGGGTGGATCATTCACAGAACCAGAAGAGACTTTACATCATGACACTACGATGTCTG
GCACCTTACCGAAGGCTAGGAATAGGAACTAAAATATTAAATCATGTCTTAAACGTCTGTGAAAAAGATGGTATTTTTGA
CAACATCTATCTGCATGTCCAGATCAGCAACGGGTCGGCAATTGACTTCTACAGGAAGTTTGGCTTTGAGATTATCGAGA
CAAAGAAGAACTACTATAAGAGGATAGAGCCCGCAGATGCTCATGTGCTGCAGAAAAACCTCAAAGTTCCTTCTGGTCAG
AATGCAGATGTGCAAAAGACAGACAAC

Alignment

ORF - retro_cjac_2823 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.08 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKGSRIELGDVTPHNIKQLKRLNQVIFPVSYNDKFYKDVLEVGELAKLAYFNDIAVGAVCCRVDHSQNQK
          MKGSRIELGDVTPHNIKQLKRLNQVIFPVS.NDKFYKDVLEVGELAKLA.FNDIAVGAVCCRVDHSQNQK
Retrocopy MKGSRIELGDVTPHNIKQLKRLNQVIFPVSCNDKFYKDVLEVGELAKLACFNDIAVGAVCCRVDHSQNQK

Parental  RLYIMTLGCLAPYRRLGIGTKMLNHVLNICEKDGTFDNIYLHVQISNESAIDFYRRFGFEIIETKKNYYK
          RLYIMTL.CLAPYRRLGIGTK.LNHVLN.CEKDG.FDNIYLHVQISN.SAIDFYR.FGFEIIETKKNYYK
Retrocopy RLYIMTLRCLAPYRRLGIGTKILNHVLNVCEKDGIFDNIYLHVQISNGSAIDFYRKFGFEIIETKKNYYK

Parental  RIEPADAHVLQKNLRVPSAQNADVQKTDN
          RIEPADAHVLQKNL.VPS.QNADVQKTDN
Retrocopy RIEPADAHVLQKNLKVPSGQNADVQKTDN

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	38.16 RPM
SRP051959_heart	0.00 RPM	42.11 RPM
SRP051959_kidney	0.02 RPM	38.14 RPM
SRP051959_liver	0.06 RPM	34.90 RPM
SRP051959_lung	0.05 RPM	34.75 RPM
SRP051959_lymph_node	0.07 RPM	38.90 RPM
SRP051959_skeletal_muscle	0.02 RPM	82.66 RPM
SRP051959_spleen	0.00 RPM	36.43 RPM

ChIP-Seq

Callithrix jacchus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cjac_2823 retrocopy.

TSS

Callithrix jacchus was not studied using FANTOM5 data.

Lab

retro_cjac_2823 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cjac_2823 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020261	2 retrocopies	retro_cjac_1941, retro_cjac_2823 ,
Otolemur garnettii	ENSOGAG00000011197	1 retrocopy	retro_ogar_157,
Procavia capensis	ENSPCAG00000009780	2 retrocopies	retro_pcap_205, retro_pcap_459,
Ictidomys tridecemlineatus	ENSSTOG00000009438	1 retrocopy	retro_itri_1703,