RetrogeneDB ID: retro_ptro_2496

Retrocopy location

• Organism: Chimpanzee (Pan troglodytes)
• Coordinates: 6:154655077..154655280(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: INTS5
• Ensembl ID: ENSPTRG00000003777
• Aliases: None
• Description: None

Sequence

>retro_ptro_2496
GGGATCCCGGGGGGAAAAATCAACTGGCGCCGAACCGAGCTGAAGAAAAAGCTGATCAGCGCAGGCCGGTGTTGAACCGC
AAGCAGCGTCTGAGGCACTGGGTGGTCGAGGCTGTGATAGATCAAGCGCTGATCACGCGGCACCACCTCAAGAAGCAGGC
ATCCAGTGCACGTGCCAACATTACTCTGTAGGGGAAGAAGCAA

Alignment

ORF - retro_ptro_2496 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.81 %
• Parental protein coverage: 68.69 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GAPGGKINRPRTELKKKLF-KRRRVLNRERRLRHRVVGAVIDQGLITRHHLKKRSSSARANITLSGKKR
          G.PGGKIN..RTELKKKL...RR.VLNR..RLRH.VV.AVIDQ.LITRHHLKK..SSARANITL.GKK.
Retrocopy GIPGGKINWRRTELKKKLI<QRRPVLNRKQRLRHWVVEAVIDQALITRHHLKKQASSARANITL*GKKQ

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
SRP007412_brain_prefrontal_cortex	0.00 RPM	21.00 RPM
SRP007412_cerebellum	0.00 RPM	17.42 RPM
SRP007412_heart	0.00 RPM	6.97 RPM
SRP007412_kidney	0.00 RPM	24.24 RPM
SRP007412_liver	0.00 RPM	28.77 RPM
SRP007412_testis	0.11 RPM	13.81 RPM

ChIP-Seq

Pan troglodytes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ptro_2496 retrocopy.

TSS

Pan troglodytes was not studied using FANTOM5 data.

Lab

retro_ptro_2496 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ptro_2496 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3681
Macaca mulatta	retro_mmul_1785

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Pan troglodytes	ENSPTRG00000003777	1 retrocopy	retro_ptro_2496 ,