RetrogeneDB ID: retro_ggor_271

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:102177807..102178208(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C1ORF123
• Ensembl ID: ENSGGOG00000004027
• Aliases: None
• Description: None

Sequence

>retro_ggor_271
CAGTGGTACCTGAAAATGAAATGTGGCAATGGTAGCGAGATTTCAGAGAAGTGGCACTACATCCAACTGATGGACAGTGT
GGCACTAAAGTGGGGCCATGGCAGCTCCTTCATGGTCCAGAAGTGCAAGCTGTGCACACAGGAAACTCCACTGTGATTTT
GAGTGGCAGCATCAAATCTTACAATGCCAAAGACAGAGAGAAGTTCAAAACTATAATAGAGTTTGAGTGCCAGGGCTTCA
AACCATTTGATTTCCAGCCCTAGGCTGGGTTTTCTGCTGAGGGCACGAAGTCAAAGACAGTCTTTGGTGACATTCTGCAG
GAGAAAGACTGGACTGACTATGACAAAAAGTCCAGGGAGTCTGTGGGAATCTCTGAGGTCATGCAGCAGTTTTTGAAGTG
C

Alignment

ORF - retro_ggor_271 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.85 %
• Parental protein coverage: 84.38 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RWYLKMKCGNCGEISDKWQYIRLMDSVALKGGRGSASMVQKCKLCARE-NSIEILSSTIKPYNAEDNENF
          .WYLKMKCGN..EIS.KW.YI.LMDSVALK.G.GS..MVQKCKLC..E.NS..ILS..IK.YNA.D.E.F
Retrocopy QWYLKMKCGNGSEISEKWHYIQLMDSVALKWGHGSSFMVQKCKLCTQE<NSTVILSGSIKSYNAKDREKF

Parental  KTIVEFECRGLEPVDFQPQAGFAAEGVESGTAFSDINLQEKDWTDYDEKAQESVGIYEVTHQFVKC
          KTI.EFEC.G..P.DFQP.AGF.AEG..S.T.F.DI.LQEKDWTDYD.K..ESVGI.EV..QF.KC
Retrocopy KTIIEFECQGFKPFDFQP*AGFSAEGTKSKTVFGDI-LQEKDWTDYDKKSRESVGISEVMQQFLKC

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	30.69 RPM
SRP007412_cerebellum	0.00 RPM	34.63 RPM
SRP007412_heart	0.00 RPM	10.79 RPM
SRP007412_kidney	0.00 RPM	32.96 RPM
SRP007412_liver	0.00 RPM	27.80 RPM
SRP007412_testis	0.00 RPM	47.97 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_271 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_271 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_192
Pongo abelii	retro_pabe_443

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Parental genes homology:

Parental genes homology involve 14 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004526	3 retrocopies	retro_cjac_2948, retro_cjac_3149, retro_cjac_3186,
Cavia porcellus	ENSCPOG00000011509	1 retrocopy	retro_cpor_1142,
Homo sapiens	ENSG00000162384	1 retrocopy	retro_hsap_192,
Gorilla gorilla	ENSGGOG00000004027	1 retrocopy	retro_ggor_271 ,
Microcebus murinus	ENSMICG00000006397	1 retrocopy	retro_mmur_1113,
Myotis lucifugus	ENSMLUG00000002439	1 retrocopy	retro_mluc_101,
Mus musculus	ENSMUSG00000028608	1 retrocopy	retro_mmus_975,
Nomascus leucogenys	ENSNLEG00000017988	1 retrocopy	retro_nleu_1001,
Oryctolagus cuniculus	ENSOCUG00000029317	1 retrocopy	retro_ocun_770,
Otolemur garnettii	ENSOGAG00000013324	1 retrocopy	retro_ogar_861,
Ochotona princeps	ENSOPRG00000009003	2 retrocopies	retro_opri_351, retro_opri_711,
Pongo abelii	ENSPPYG00000001336	1 retrocopy	retro_pabe_443,
Pan troglodytes	ENSPTRG00000000752	1 retrocopy	retro_ptro_99,
Rattus norvegicus	ENSRNOG00000012724	3 retrocopies	retro_rnor_1999, retro_rnor_2403, retro_rnor_2705,