RetrogeneDB ID: retro_ggor_434

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:125948337..125948794(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGGOG00000011507
• Aliases: None
• Description: None

Sequence

>retro_ggor_434
TATTTTGGAGACTTCAATTTGCCACGGGACAGGTTTTTAAGGGAACAGATAAAACTGGACGAAGGCTGGGTATCTTTGGA
GATAATGATAAAATTCAACAGGTTGAACCATCTAACAACAGACTTTAATGTAATTGTGGAAGCATTGAGCAAATCCAAGG
CAGAACTCATGAAAATCAGTGAAGATAAAACTAAAATCAGAAGGTCTTCAAGCAAACCCCTACCTGAAGTGACTGATGAG
TATAAAAATGATGTAAAGAAACAGATCTGTTTATATTAAAGGCTTCCGAACTGATGCAACTCTTGATGACATAAAAGAAT
GATTAGAAGATAAAGATCAAGTACTAAATATTCAGATGAGAAGAACATTGCATAAAATATTTAAGGGATCAGTTTTTGTT
GTGTTTGATAGCATTGAATCTGCTAAGAAGTTTGTAGAGACCCCTGGCCAGAAGTAC

Alignment

ORF - retro_ggor_434 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.16 %
• Parental protein coverage: 84.92 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISEDKTKIRRSP
          YFGDFNLPRD.FL.EQIKLDEGWV.LEIMIKFNRLN.LTTDFNVIVEALSKSKAELM.ISEDKTKIRRS.
Retrocopy YFGDFNLPRDRFLREQIKLDEGWVSLEIMIKFNRLNHLTTDFNVIVEALSKSKAELMKISEDKTKIRRSS

Parental  SKPLPEVTDEYKNDVK-NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIE
          SKPLPEVTDEYKNDVK.NRSVYIKGF.TDATLDDIKE.LEDK.QVLNIQMRRTLHK.FKGS.FVVFDSIE
Retrocopy SKPLPEVTDEYKNDVK>NRSVYIKGFRTDATLDDIKE*LEDKDQVLNIQMRRTLHKIFKGSVFVVFDSIE

Parental  SAKKFVETPGQKY
          SAKKFVETPGQKY
Retrocopy SAKKFVETPGQKY

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	1.68 RPM	5.47 RPM
SRP007412_cerebellum	1.02 RPM	3.39 RPM
SRP007412_heart	0.31 RPM	0.91 RPM
SRP007412_kidney	0.82 RPM	6.62 RPM
SRP007412_liver	0.58 RPM	3.22 RPM
SRP007412_testis	1.35 RPM	6.53 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_434 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_434 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007763	5 retrocopies	retro_chof_1125, retro_chof_1292, retro_chof_1380, retro_chof_185, retro_chof_2593,
Dasypus novemcinctus	ENSDNOG00000013450	1 retrocopy	retro_dnov_2038,
Echinops telfairi	ENSETEG00000004614	1 retrocopy	retro_etel_2056,
Gorilla gorilla	ENSGGOG00000011507	3 retrocopies	retro_ggor_2914, retro_ggor_434 , retro_ggor_791,
Gorilla gorilla	ENSGGOG00000023471	4 retrocopies	retro_ggor_2834, retro_ggor_2915, retro_ggor_433, retro_ggor_792,
Loxodonta africana	ENSLAFG00000000867	3 retrocopies	retro_lafr_698, retro_lafr_745, retro_lafr_982,
Macropus eugenii	ENSMEUG00000001650	1 retrocopy	retro_meug_1908,
Myotis lucifugus	ENSMLUG00000016316	1 retrocopy	retro_mluc_2493,
Monodelphis domestica	ENSMODG00000008227	1 retrocopy	retro_mdom_1080,
Otolemur garnettii	ENSOGAG00000029768	1 retrocopy	retro_ogar_1642,
Rattus norvegicus	ENSRNOG00000007998	1 retrocopy	retro_rnor_405,
Tupaia belangeri	ENSTBEG00000009056	4 retrocopies	retro_tbel_1065, retro_tbel_1269, retro_tbel_3318, retro_tbel_4012,
Tursiops truncatus	ENSTTRG00000002152	2 retrocopies	retro_ttru_1926, retro_ttru_466,