RetrogeneDB ID: retro_ggor_689

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 11:4166611..4167721(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RDX
• Ensembl ID: ENSGGOG00000027218
• Aliases: None
• Description: None

Sequence

>retro_ggor_689
ACTGAATTGTGCCTAGGTGTTGATGCTTTGGGTCTGAATATTTATGAGCATGATGACAAGTTAACACCTAAAACTGGTTT
TCCGTGGAGTGAAATCAGAAATGTTTCATTTAATGACAAAAAATTTGTTATAAAGCCAATCAACAAAAAGACACCTGATT
TTGGTTTTTATGCCCCTCACCTGAGAGTCAATAAGCAGATTTTGGCCTTATGTATGGGAAACCACGAACTATACATGCGA
AGAAGGAAGCCTGATACTATTGAAGTATGACAGATGAGGGCTCAGGCTAGGAAGGAGAAACATCAGAAGCAGTTGGAGAG
GGCACAATTAGAGAATAAAAAGAAGAAAAGAGAAATAGCAGAAAAGGAAAGAATAGAATGTGAAAAGGAAGAGCTAATGG
AACGTCTAAAACAAATAGAAGAACAGACGATTAAAGCCCAGAAATAACTAGAAGAACGGACGCAAAAAGCTCTAGAACTG
GATCAAGAATGAAAACGAGCAAAAGAAGCAGCAGAGTGGCTTGAAAAGGAGCGTCGAGCTGCTGAAGAGGCGAAGTCTGC
CATAGCAAAACAAGCTGCCGACCAGAAGAAGAATCAGGAGCAACTAGCAGCAAAACTTGCTCAATTCACTGCCAAGATTG
TACTTCTAGAAGAAGCCAAGAAGAAAAAGGAAGAGGAAGCTACTGAGTGGCAACACAAAGGTTTTGCAGCCCAGAAGACT
TGGAAAAGACCAAAGAAGAGTTAAAAACTGTGATGTCTGCCCCACCCCCGACCTCCACCACCACCACCACCAGTCATTCC
TTCGACAGAAAATGAACGTGATGAACATGATGAGATTAGTGCTGAGGCTCGTGCTGAATTATCAAATGAAGGGGTAATGA
ACCATAGAAGCAAAGAAGAACATGTAACATAAACACAGAAAAACGAGCGTGGTAAGAAGCAACTTCAGGCCTTAAGTTCA
GAATTAGCCCAAGCCAGAGATGAAACCAAGAAAACACAAAAGGATGTTCTTCAGGCTAAGAATGTTGAAACAGGCCATGG
TAAGTACAAGACTCTGTGACCGATTCGACAAGGCAACACAAAGCAGCGTACCAGTGAGTTTGAAGCAATG

Alignment

ORF - retro_ggor_689 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.82 %
• Parental protein coverage: 61.26 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TELWLGVDALGLNIYEHDDKLTPKIGFPWSEIRNISFNDKKFVIKPIDKKAPDFVFYAPRLRINKRILAL
          TEL.LGVDALGLNIYEHDDKLTPK.GFPWSEIRN.SFNDKKFVIKPI.KK.PDF.FYAP.LR.NK.ILAL
Retrocopy TELCLGVDALGLNIYEHDDKLTPKTGFPWSEIRNVSFNDKKFVIKPINKKTPDFGFYAPHLRVNKQILAL

Parental  CMGNHELYMRRRKPDTIEVQQMKAQAREEKHQKQLERAQLENEKKKREIAEKEKERIEREKEELMERLKQ
          CMGNHELYMRRRKPDTIEV.QM.AQAR.EKHQKQLERAQ..................E.E..ELMERLKQ
Retrocopy CMGNHELYMRRRKPDTIEV*QMRAQARKEKHQKQLERAQXXXXXXXXXXXXXXXXECEKE--ELMERLKQ

Parental  IEEQTIKAQKELEEQTRKALELDQERKRAKEEAERLEKERRAAEEAKSAIAKQAADQMKNQEQLAAELAE
          IEEQTIKAQK.LEE.T.KALELDQE.KRAKE.AE.LEKERRAAEEAKSAIAKQAADQ.KNQEQLAA.LA.
Retrocopy IEEQTIKAQK*LEERTQKALELDQE*KRAKEAAEWLEKERRAAEEAKSAIAKQAADQKKNQEQLAAKLAQ

Parental  FTAKIALLEEAKKKKEEEATEWQHKAFAAQ-EDLEKTKEELKTVMSAPPP-PP--PPPVIPPTENEHDEH
          FTAKI.LLEEAKKKKEEEATEWQHK.FAAQ.EDLEKTKEELKTVMSAPPP.PP..PPPVIP.TENE.DEH
Retrocopy FTAKIVLLEEAKKKKEEEATEWQHKGFAAQ<EDLEKTKEELKTVMSAPPP>PPPPPPPVIPSTENERDEH

Parental  DENNAEASAELSNEGVMNHRSEEERVTETQKNERVKKQLQALSSELAQARDETKKTQNDVLHAENVKAGR
          DE..AEA.AELSNEGVMNHRS.EE.VT.TQKNER.KKQLQALSSELAQARDETKKTQ.DVL.A.NV..G.
Retrocopy DEISAEARAELSNEGVMNHRSKEEHVT*TQKNERGKKQLQALSSELAQARDETKKTQKDVLQAKNVETGH

Parental  DKYKTLRQIRQGNTKQRIDEFEAM
          .KYKTL..IRQGNTKQR..EFEAM
Retrocopy GKYKTL*PIRQGNTKQRTSEFEAM

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	25.03 RPM
SRP007412_cerebellum	0.00 RPM	19.42 RPM
SRP007412_heart	0.00 RPM	8.16 RPM
SRP007412_kidney	0.00 RPM	37.21 RPM
SRP007412_liver	0.00 RPM	18.91 RPM
SRP007412_testis	0.00 RPM	84.74 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_689 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_689 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000019413	1 retrocopy	retro_dnov_1663,
Homo sapiens	ENSG00000137710	1 retrocopy	retro_hsap_840,
Gorilla gorilla	ENSGGOG00000001823	1 retrocopy	retro_ggor_1359,
Gorilla gorilla	ENSGGOG00000013301	1 retrocopy	retro_ggor_690,
Gorilla gorilla	ENSGGOG00000027218	1 retrocopy	retro_ggor_689 ,
Pan troglodytes	ENSPTRG00000004259	1 retrocopy	retro_ptro_2281,