RetrogeneDB ID: retro_ptro_120

Retrocopy location

• Organism: Chimpanzee (Pan troglodytes)
• Coordinates: 3:190658955..190659180(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSPTRG00000038958
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSPTRG00000039245
• Aliases: None
• Description: None

Sequence

>retro_ptro_120
ATGGGGGTGAAGCTGGAGATATTTCGGATGATAATCTACCTCACTTTCCCTGTGGCTATGTTCTGGGTTTCCAATCAGGC
CGAGTGGTTTGAGGATGATGTCATACAGCGCAAGAGGGAGCTGTGGCCACCTGAGAAGCTTCAAGAGTTAGAGGAATTCA
AAGAGAGGTTACGGAAGCGGAAGCGGCGGGAGGAGAAGCTCCTTCGCGACGCCCAGCAGAACTCC

Alignment

ORF - retro_ptro_120 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96. %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGVKLEIFRMIIYLTFPVAMFWVSNQAEWFEDDVIQRKRELWPPEKLQEIEEFKERL--RKRREEKLLRD
          MGVKLEIFRMIIYLTFPVAMFWVSNQAEWFEDDVIQRKRELWPPEKLQE.EEFKERL..RKRREEKLLRD
Retrocopy MGVKLEIFRMIIYLTFPVAMFWVSNQAEWFEDDVIQRKRELWPPEKLQELEEFKERLRKRKRREEKLLRD

Parental  AQQNS
          AQQNS
Retrocopy AQQNS

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	0.39 RPM	20.43 RPM
SRP007412_cerebellum	0.61 RPM	12.65 RPM
SRP007412_heart	0.87 RPM	26.96 RPM
SRP007412_kidney	1.02 RPM	28.22 RPM
SRP007412_liver	0.85 RPM	32.60 RPM
SRP007412_testis	0.74 RPM	25.50 RPM

ChIP-Seq

Pan troglodytes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ptro_120 retrocopy.

TSS

Pan troglodytes was not studied using FANTOM5 data.

Lab

retro_ptro_120 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ptro_120 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Gorilla gorilla	retro_ggor_1905

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008524	2 retrocopies	retro_amel_591, retro_amel_878,
Equus caballus	ENSECAG00000008451	1 retrocopy	retro_ecab_606,
Felis catus	ENSFCAG00000023931	2 retrocopies	retro_fcat_1266, retro_fcat_1752,
Gorilla gorilla	ENSGGOG00000027594	1 retrocopy	retro_ggor_1905,
Pan troglodytes	ENSPTRG00000039245	1 retrocopy	retro_ptro_120 ,