RetrogeneDB ID: retro_ggor_2067

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:148583303..148584535(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000023749
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NOB1
• Ensembl ID: ENSGGOG00000025456
• Aliases: None
• Description: None

Sequence

>retro_ggor_2067
ATGGCTCCAGTGGAGCACGTTGTGGCGGATGCTGGGGCTTTCCTGCGGGATGCGGCTCTGCAGGACATCGGGAAGAACAT
TTACACCATCCGGGAGGTGGTCACTGAGATTCGGGACAAGGCCACATGCAGGCGGCTCGCTGTCCTGCCCTATGAGCTGC
GGTTCAAGGAGCCCTTACTGGAATACGTGCGGCTGGTGACTGAGTTTTCAAAGAAAACAGGAGACTACCCCAGCCTCTCT
GCCACGGACATCCAAGTGCTTGCGCTCACATATCAGTTGGAAGCAGAGTTTGTTGGGGTGTCTCACCTAAAACAAGAACC
ACAGAAGGTTAAAGTGAGCTCATCGATTCAGCACCCAGAAACACCTCTGCACATTTCTGGTTTCCATCTGCCCTCCAAGC
CTAAACCCCCACAAGAAACAGAAAAAGGACACCCAGCTTGTGAGCCTGAGAACCTGGAATTTAGTTTCTTCATGTTCTGG
AGAAACCCTCTGCCCAACATCGATCATGAACTGCAGGAGCCGCTGATTGACAGAGGTGAGGACGTTCCAAGTGAGGAGGA
GGAGAAAGAGAACGGGTCTGAAGACAGAAAAGATGACAGCGATGACGACGGGGGTGGCTGGATAACCCCCAGTAACATCA
AGAAGATCCAGCAGCAGCTGGAGCAATGCGACGTCCCCGAGGACGTGCGGGTTGGCTGCATGACCACAGACTTCGCCAGG
CAGAATGTTCTGCTGCAGATGGGGCTGCACGTGCTGGCGGTGAACTGCATGCTGATTCGTGAGGCCCGGAGCTACGTCTT
GGCTGACACGGCTGTTTCAAGACAACGTCTGACATGAGCCGAGTGTTCTGTTCACACTGTTGGGAACAAGACCCTGAAGA
AAGTGTCCGTGACCATCAGCAACGACGGCACCCTGCACATGCACTTCTCCCGCAACCCCAAGGTGCTGAACGCCCGCGGC
CTCCGGTACTCGCTTCCCACTCCCAAAGGGGGCAAATACGCCATCAACCCCCATCTCACCGAGGATCAGCGCTTCCCTCA
ACCGCAACTCTCCGAAAGGCCGGGCAGAAAACCAACGTATTCGCCCCTGACTACATCGCTGGGATGTCGCCCTTTGTCAA
GAATGACATCTCCAGCCGCTCAGCTACCCTACAGGTCCGGGACAGCACCTTGGGAGCTGGGCGGAGACGCTTAAATCCCA
ACGCTTCCAGAAAGAAGTTTGTGAAGAAAAGG

Alignment

ORF - retro_ggor_2067 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.01 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MAPVEHVVADAGAFLRDAALQDIGKNIYTIQEVVTEIRDKATRRRLAVLPYELRFKEPLPEYVRLVTEFS
          MAPVEHVVADAGAFLRDAALQDIGKNIYTI.EVVTEIRDKAT.RRLAVLPYELRFKEPL.EYVRLVTEFS
Retrocopy MAPVEHVVADAGAFLRDAALQDIGKNIYTIREVVTEIRDKATCRRLAVLPYELRFKEPLLEYVRLVTEFS

Parental  KKTGDYPSLSATDIQVLALTYQLEAEFVGVSHLKQEPQKVKVSSSIQHPETPLHISGFHLPSKPKPPQET
          KKTGDYPSLSATDIQVLALTYQLEAEFVGVSHLKQEPQKVKVSSSIQHPETPLHISGFHLPSKPKPPQET
Retrocopy KKTGDYPSLSATDIQVLALTYQLEAEFVGVSHLKQEPQKVKVSSSIQHPETPLHISGFHLPSKPKPPQET

Parental  EKGHSACEPENLEFSSFMFWRNPLPNIDHELQELLIDRGEDVPSEEEEEEENGFEDRKDDSDDDGGGWIT
          EKGH.ACEPENLEFS.FMFWRNPLPNIDHELQE.LIDRGEDVPS.EEEE.ENG.EDRKDDSDDDGGGWIT
Retrocopy EKGHPACEPENLEFSFFMFWRNPLPNIDHELQEPLIDRGEDVPS-EEEEKENGSEDRKDDSDDDGGGWIT

Parental  PSNIKQIQQELEQCHVPEDVRVGCLTTDFAMQNVLLQMGLHVLAVNGMLIREARSYILRC-HGCFKTTSD
          PSNIK.IQQ.LEQC.VPEDVRVGC.TTDFA.QNVLLQMGLHVLAVN.MLIREARSY.L...HGCFKTTSD
Retrocopy PSNIKKIQQQLEQCDVPEDVRVGCMTTDFARQNVLLQMGLHVLAVNCMLIREARSYVLAD<HGCFKTTSD

Parental  MSRVFCSHC-GNKTLKKVSVTVSDDGTLHMHFSRNPKVLNPRGLRYSLPTPKGGKYAINPHLTEDQRFPQ
          MSRVFCSHC.GNKTLKKVSVT.S.DGTLHMHFSRNPKVLN.RGLRYSLPTPKGGKYAINPHLTEDQRFPQ
Retrocopy MSRVFCSHC>GNKTLKKVSVTISNDGTLHMHFSRNPKVLNARGLRYSLPTPKGGKYAINPHLTEDQRFPQ

Parental  LRLS-RKARQKTNVFAPDYIAGVSPFVENDISSRSATLQVRDSTLGAGRRRLNPNASRKKFVKKR
          ..LS.RKA.QKTNVFAPDYIAG.SPFV.NDISSRSATLQVRDSTLGAGRRRLNPNASRKKFVKKR
Retrocopy PQLS<RKAGQKTNVFAPDYIAGMSPFVKNDISSRSATLQVRDSTLGAGRRRLNPNASRKKFVKKR

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	0.24 RPM	20.76 RPM
SRP007412_cerebellum	0.08 RPM	19.50 RPM
SRP007412_heart	0.03 RPM	7.32 RPM
SRP007412_kidney	0.08 RPM	16.52 RPM
SRP007412_liver	0.13 RPM	13.90 RPM
SRP007412_testis	0.21 RPM	22.27 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_2067 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2067 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2984
Pan troglodytes	retro_ptro_2019

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000014384	1 retrocopy	retro_eeur_450,
Homo sapiens	ENSG00000141101	1 retrocopy	retro_hsap_2984,
Gorilla gorilla	ENSGGOG00000025456	1 retrocopy	retro_ggor_2067 ,
Pan troglodytes	ENSPTRG00000008285	1 retrocopy	retro_ptro_2019,