RetrogeneDB ID: retro_ggor_2963

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:128137630..128138002(+)
• Located in intron of: ENSGGOG00000007569

Retrocopy information

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

Parental gene information

• Parental gene symbol: C12ORF49
• Ensembl ID: ENSGGOG00000015690
• Aliases: None
• Description: None

Sequence

>retro_ggor_2963
ATGGTGAACCTAGCAGCCATGGTGTGGCGCCGGCTTCTGCGGAAGAGGTGGGTTCTCGCCCTGGTCTTTGGGCTGTCGCT
TGTCTACTTCTTCAGCACCACCTCCAGGCAGGAGGAGAGGGCAGTGAGAGAGAGGAATCCCCTGCAAGTTCAAGACCATG
ATCAGCCCATCCCGTGTAAAGTGTAGTTTAACTTGGGCAATAGCAGTCGTCCCAGCAATCAGTGCCACAACTCCATTCAA
GGGAAACACCTCATCACGGATGAACTCAGCTACGTTTGTGAGAGGAAGGATTTGCTGGTGAATGGCTGCTGTAACGTCAA
CGTCCCTAGCACAAAGCAGTACTGCTGCGATGGCTGCTGGCCAAACGGCTGC

Alignment

ORF - retro_ggor_2963 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.32 %
• Parental protein coverage: 61.39 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVNLAAMVWRRLLRKRWVLALVFGLSLVYFLSSTFKQEERAVRDRNLLQVHDHNQPIPWKVQFNLGNSSR
          MVNLAAMVWRRLLRKRWVLALVFGLSLVYF.S.T..QEERAVR.RN.LQV.DH.QPIP.KV.FNLGNSSR
Retrocopy MVNLAAMVWRRLLRKRWVLALVFGLSLVYFFSTTSRQEERAVRERNPLQVQDHDQPIPCKV*FNLGNSSR

Parental  PSNQCRNSIQGKHLITDELGYVCERKDLLVNGCCNVNVPSTKQYCCDGCWPNGC
          PSNQC.NSIQGKHLITDEL.YVCERKDLLVNGCCNVNVPSTKQYCCDGCWPNGC
Retrocopy PSNQCHNSIQGKHLITDELSYVCERKDLLVNGCCNVNVPSTKQYCCDGCWPNGC

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	11.56 RPM
SRP007412_cerebellum	0.04 RPM	5.40 RPM
SRP007412_heart	0.00 RPM	2.38 RPM
SRP007412_kidney	0.00 RPM	6.26 RPM
SRP007412_liver	0.00 RPM	2.80 RPM
SRP007412_testis	0.10 RPM	13.88 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_2963 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2963 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4758
Macaca mulatta	retro_mmul_2537

---

Parental genes homology:

Parental genes homology involve 10 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012481	2 retrocopies	retro_amel_1518, retro_amel_1578,
Bos taurus	ENSBTAG00000047139	1 retrocopy	retro_btau_1667,
Callithrix jacchus	ENSCJAG00000009570	1 retrocopy	retro_cjac_1471,
Dasypus novemcinctus	ENSDNOG00000001294	9 retrocopies	retro_dnov_126, retro_dnov_1532, retro_dnov_1609, retro_dnov_1622, retro_dnov_1739, retro_dnov_2042, retro_dnov_2185, retro_dnov_2285, retro_dnov_232,
Echinops telfairi	ENSETEG00000016892	3 retrocopies	retro_etel_1064, retro_etel_1377, retro_etel_410,
Homo sapiens	ENSG00000111412	1 retrocopy	retro_hsap_4758,
Gorilla gorilla	ENSGGOG00000015690	2 retrocopies	retro_ggor_2963 , retro_ggor_508,
Myotis lucifugus	ENSMLUG00000011912	1 retrocopy	retro_mluc_166,
Macaca mulatta	ENSMMUG00000018247	2 retrocopies	retro_mmul_2376, retro_mmul_2537,
Pan troglodytes	ENSPTRG00000005500	1 retrocopy	retro_ptro_2798,