RetrogeneDB ID: retro_ggor_284

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:120675311..120675747(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: VPS25
• Ensembl ID: ENSGGOG00000016041
• Aliases: None
• Description: None

Sequence

>retro_ggor_284
ATGGTGATGAATTTCAAGTGGTTGTGGCAGTATCGCTTTCCCGCCCTTTACATTACAGCTGAACGTGGCCACTTGGCAGA
AGCAGCTGGCCACCTGGTGTTCGTTGGTTCTGTCCATCTGCTGCCTGCACAAACAGTCCAGCATGATGGTTATGGATGCT
CAGGAGATCCTGCTCTTCAGCAACATCAAGCTGTGGAAGCTTCCTGTGGGATCAATCCAGGTTGTATTAGAGGAACTGAG
GAAGAATGGGAACTTACAGTGGCTGGATAAGAGCAAGTCTAGTTTCCTAATCATGTGGCGGAGGCCAGAAGAATGGGGAA
AACTCATCTATCAGTGGGTCTCCAGGAGTGGCCAGAACAACTCCGTACTTAGCCTGTATGAGCTGACCAATGGGGAAGAC
ATAGAGAATGAGGTGTTCCACGGACTACAGGAGGCC

Alignment

ORF - retro_ggor_284 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.19 %
• Parental protein coverage: 83.62 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAMSFEWPWQYRF-PPFFTLQPNVDTRQKQLAAWCSLVLSFCRLHKQSSMTVMEAQESPLFNNVKLQRRK
          M.M.F.W.WQYRF.PPF.TLQ.NV.T.QKQLA.WCSLVLS.C.LHKQSSM.VM.AQE..LF.N.KL...K
Retrocopy MVMNFKWLWQYRF>PPF-TLQLNVATWQKQLATWCSLVLSICCLHKQSSMMVMDAQEILLFSNIKLW--K

Parental  LPVESIQIVLEELRKKGNLEWLDKSKSSFLIMWRRPEEWGKLIYQWVSRSGQNNSVFTLYELTNGEDTED
          LPV.SIQ.VLEELRK.GNL.WLDKSKSSFLIMWRRPEEWGKLIYQWVSRSGQNNSV..LYELTNGED.E.
Retrocopy LPVGSIQVVLEELRKNGNLQWLDKSKSSFLIMWRRPEEWGKLIYQWVSRSGQNNSVLSLYELTNGEDIEN

Parental  EEFHGLDEA
          E.FHGL.EA
Retrocopy EVFHGLQEA

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	18.17 RPM
SRP007412_cerebellum	0.00 RPM	14.18 RPM
SRP007412_heart	0.00 RPM	10.69 RPM
SRP007412_kidney	0.00 RPM	37.58 RPM
SRP007412_liver	0.00 RPM	26.72 RPM
SRP007412_testis	0.00 RPM	19.79 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_284 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_284 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_213
Pan troglodytes	retro_ptro_334
Pongo abelii	retro_pabe_427
Macaca mulatta	retro_mmul_406

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000013276	1 retrocopy	retro_cjac_2959,
Homo sapiens	ENSG00000131475	1 retrocopy	retro_hsap_213,
Gorilla gorilla	ENSGGOG00000016041	1 retrocopy	retro_ggor_284 ,
Macropus eugenii	ENSMEUG00000011611	2 retrocopies	retro_meug_1247, retro_meug_1681,
Macaca mulatta	ENSMMUG00000002149	1 retrocopy	retro_mmul_406,
Nomascus leucogenys	ENSNLEG00000011797	1 retrocopy	retro_nleu_1862,
Ochotona princeps	ENSOPRG00000012574	1 retrocopy	retro_opri_1071,
Pongo abelii	ENSPPYG00000008377	1 retrocopy	retro_pabe_427,
Pan troglodytes	ENSPTRG00000009220	2 retrocopies	retro_ptro_1624, retro_ptro_334,