RetrogeneDB ID: retro_ggor_1756

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 2b:15138762..15139277(-)
• Located in intron of: ENSGGOG00000000551

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000116649
• Ensembl ID: ENSGGOG00000014385
• Aliases: None
• Description: None

Sequence

>retro_ggor_1756
CCTGGCTTCAATGGTCACGCTGCCATTTAGGAGGGCTGCTTCCATGAGATCTTCAGCCTGAGCCCAGGGAAGCCTTGTTG
CTACAGATGGAGCAGCTGCTCCACTGCCAGCGCTCACGCTCCCAGGATATCCTTGTTTTCCACAGTAAGACCCACAGCAG
TGTGCTGGTGTTGGATGGCATCATCCCCTGCATGGACAGGGACAAGTTCTCCTACTAGATGAGAATCAACCTGCCATTCA
GCAACCACCCCATCCCACAAAAGGTGCTGATCGTCGGGGACAAAGACGGCATCCTGCACAAGGTGGTGAAGCACCCCTCT
GTGGAGTCTGTGGTCCGATGATAGACTGAAAAGGATGGCACTCGGGTCTCTAAGAAATTCCTGCCGGGTATGGCCATTGG
CTTCTCTAGCTCTAAGCTGACCCTGCATAAGGGTGATGATTTTGATTTCGTGAAGCAGAACCAGGATGCCTTCAATATTA
CGATCACTGACTCCTGGGATCCGCTGAGCCCCTCT

Alignment

ORF - retro_ggor_1756 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64. %
• Parental protein coverage: 58.78 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PAASGPAAIREGWFRETCSLWPG-QALSLQVEQLLHPRRSRYQDILVFRSKTYGNVLVLDGVIQCTERDE
          P...G.AAI.EG.F.E..SL.PG..AL.LQ.EQLLH..RSR.QDILVF.SKT...VLVLDG.I.C..RD.
Retrocopy PGFNGHAAI*EGCFHEIFSLSPG<EALLLQMEQLLHCQRSRSQDILVFHSKTHSSVLVLDGIIPCMDRDK

Parental  FSYQEMIANLPLCSHPNPRKVLIIGGGDGGVLREVVKHPSVESVVQCEIDEDVIQVSKKFLPGMAIGYSS
          FSY...I.NLP...HP.P.KVLI.G..DG..L..VVKHPSVESVV......D...VSKKFLPGMAIG.SS
Retrocopy FSY*MRI-NLPFSNHPIPQKVLIVGDKDG-ILHKVVKHPSVESVVR**TEKDGTRVSKKFLPGMAIGFSS

Parental  SKLTLHVGDGFEFMKQNQDAFDVIITDSSDPMGPA
          SKLTLH.GD.F.F.KQNQDAF...ITDS.DP..P.
Retrocopy SKLTLHKGDDFDFVKQNQDAFNITITDSWDPLSPS

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	13.57 RPM
SRP007412_cerebellum	0.00 RPM	8.00 RPM
SRP007412_heart	0.00 RPM	7.88 RPM
SRP007412_kidney	0.08 RPM	6.09 RPM
SRP007412_liver	0.00 RPM	4.51 RPM
SRP007412_testis	0.00 RPM	5.28 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_1756 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1756 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2313
Pan troglodytes	retro_ptro_1688

---

Parental genes homology:

Parental genes homology involve 15 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002354	4 retrocopies	retro_cjac_2131, retro_cjac_2524, retro_cjac_3331, retro_cjac_4025,
Dasypus novemcinctus	ENSDNOG00000013348	1 retrocopy	retro_dnov_338,
Homo sapiens	ENSG00000116649	2 retrocopies	retro_hsap_1426, retro_hsap_2313,
Gorilla gorilla	ENSGGOG00000014385	1 retrocopy	retro_ggor_1756 ,
Loxodonta africana	ENSLAFG00000028297	2 retrocopies	retro_lafr_1175, retro_lafr_894,
Macropus eugenii	ENSMEUG00000007002	2 retrocopies	retro_meug_1330, retro_meug_887,
Myotis lucifugus	ENSMLUG00000017585	1 retrocopy	retro_mluc_2458,
Macaca mulatta	ENSMMUG00000019321	2 retrocopies	retro_mmul_1500, retro_mmul_2259,
Mustela putorius furo	ENSMPUG00000016435	1 retrocopy	retro_mputfur_1085,
Mus musculus	ENSMUSG00000006442	1 retrocopy	retro_mmus_3271,
Nomascus leucogenys	ENSNLEG00000009532	3 retrocopies	retro_nleu_1842, retro_nleu_2082, retro_nleu_2778,
Ochotona princeps	ENSOPRG00000012079	1 retrocopy	retro_opri_1119,
Pongo abelii	ENSPPYG00000001892	3 retrocopies	retro_pabe_1181, retro_pabe_1828, retro_pabe_2044,
Pan troglodytes	ENSPTRG00000000138	3 retrocopies	retro_ptro_1403, retro_ptro_1688, retro_ptro_975,
Sus scrofa	ENSSSCG00000027689	1 retrocopy	retro_sscr_1208,