RetrogeneDB ID: retro_ggor_1857

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:73746962..73747426(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC137
• Ensembl ID: ENSGGOG00000009333
• Aliases: None
• Description: None

Sequence

>retro_ggor_1857
CAGCACATGCTATTCCTCAGCAAGAACCAGGCCACCCAGCAGCCAGAGGTCCAGGCAGCTCCCAAGGAGAAGTCTGAGCT
GAAAAAAGCAAAAAAAGTGTTCCAGAAGCGACGACTAGATAAAGTCTGGCAGAAAAAGGAGGAAAAGACGGCAGACAGGC
TGGAGCAGGAGTTGCTCCGAGACACAGTGAAGTTTGGTGAGGTTGTCCTGCAGCACCCAGAGCTGACTACCAGGCCCCGG
AGGAGCGTAAGCAAGGACCAGCCTGGCAGGAGATCGCAGATGCTGAGGATGCTTCTGAGCCCCCGAGGTGTATTCCAGCC
TCTGACTGCCTCCCTGGCCTACCAGCGGATTGTGGGGAGGAGAGAGAGTGGGCCATGCAGGCCTACAGATGTTGAAGCAG
CAGTGGCGGCTGCATGGGGAGTGAGCCCCTCCCCACTTCCAAGAAGGAGCCAGAGCCGCAGCTG

Alignment

ORF - retro_ggor_1857 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.62 %
• Parental protein coverage: 53.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QHVLFLSKNQAIRQPEVQAAPKEKSEQKKAKKAFQKRRLDKVRRKKEEKAADRLEQELLRDTVKFGEVVL
          QH.LFLSKNQA..QPEVQAAPKEKSE.......FQKRRLDKV..KKEEK.ADRLEQELLRDTVKFGEVVL
Retrocopy QHMLFLSKNQATQQPEVQAAPKEKSELXXXXXVFQKRRLDKVWQKKEEKTADRLEQELLRDTVKFGEVVL

Parental  QPPELTARPQWSVSKDQPGRRSQMLRMLLSPGGVSQPLTASLARQRIV-EEERERAVQAYRA-LKQRQQR
          Q.PELT.RP..SVSKDQPGRRSQMLRMLLSP.GV.QPLTASLA.QRIV..EERE.A.QAYR..LKQ.Q.R
Retrocopy QHPELTTRPRRSVSKDQPGRRSQMLRMLLSPRGVFQPLTASLAYQRIV<GEEREWAMQAYRC<LKQ-QWR

Parental  LHGE-RPHLTSRKKPEPQL
          LHGE..P..TS.K.PEPQL
Retrocopy LHGE>EPLPTSKKEPEPQL

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	0.05 RPM	23.07 RPM
SRP007412_cerebellum	0.00 RPM	20.80 RPM
SRP007412_heart	0.00 RPM	6.97 RPM
SRP007412_kidney	0.04 RPM	25.56 RPM
SRP007412_liver	0.00 RPM	10.79 RPM
SRP007412_testis	0.00 RPM	14.19 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_1857 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1857 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2661
Pongo abelii	retro_pabe_2312
Macaca mulatta	retro_mmul_1511

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000014878	1 retrocopy	retro_eeur_523,
Homo sapiens	ENSG00000185298	1 retrocopy	retro_hsap_2661,
Gorilla gorilla	ENSGGOG00000009333	1 retrocopy	retro_ggor_1857 ,
Macaca mulatta	ENSMMUG00000008831	1 retrocopy	retro_mmul_1511,
Monodelphis domestica	ENSMODG00000002713	1 retrocopy	retro_mdom_1355,
Mus musculus	ENSMUSG00000049957	1 retrocopy	retro_mmus_641,
Nomascus leucogenys	ENSNLEG00000013830	3 retrocopies	retro_nleu_1264, retro_nleu_1530, retro_nleu_586,
Pongo abelii	ENSPPYG00000008741	1 retrocopy	retro_pabe_2312,
Pan troglodytes	ENSPTRG00000009767	1 retrocopy	retro_ptro_1793,
Rattus norvegicus	ENSRNOG00000048712	1 retrocopy	retro_rnor_472,