RetrogeneDB ID: retro_ggor_2674

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:87212851..87213428(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C12ORF29
• Ensembl ID: ENSGGOG00000005986
• Aliases: None
• Description: None

Sequence

>retro_ggor_2674
TGTGTTTGTGACGGCGGTGAAAGAGGAGCCTTCCGCCAAAAGGGAACATCAGATCAGCCATAGCTTTGGGCCCAGCTAGA
TAGAAAGCTCAACAAACAAGTGGAAAAAAGATTTTAAAATCTTCTACATTCAAATGAAAACCCAAAATAATTTTTTTTGG
AACGTTGAGGAGGACTTCAAACCGGCTCTAGAGTGCTGGATACCAGCAAAGGAAATAGAACAAATAAATAGGAACCCAGT
GCCTAATGAAAATAGATACATTCCTGATTGGGTACCAGTATAGAAAAACAACAAACAGTATTGCTAGCATTCCTCTGTAG
TTAATTATGAATTTGAAATTGCCCTGGTACTAAAACATCATGCTGATGATTCTGGACTTTTGGAAATTACTGCAGTGCCA
CTATCAGATCTCTTAGAACAAACACTGGAGCTCACAGGAAAAAATATCAATGGAAACCCATATGCGTTACGGAGCAAGAA
ACATCCATTACATCTTCTTATACCACATGGAGCATTTCAAATAAGAAATCTACCTTCGTTGAAGCACAATGATATCATGT
CCTGGTTTGAAGTTTGC

Alignment

ORF - retro_ggor_2674 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.42 %
• Parental protein coverage: 58.01 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  CVCDGGERGAFLQKGASDQPYLWARLDRKPNKQAEKRFKNFLHSKENPK-EFFWNVEEDFKPAPECWIPA
          CVCDGGERGAF.QKG.SDQP.LWA.LDRK.NKQ.EKRF.N.LHS.ENPK.....NVEEDFKPA.ECWIPA
Retrocopy CVCDGGERGAFRQKGTSDQP*LWAQLDRKLNKQVEKRF*NLLHSNENPK>XXXXNVEEDFKPALECWIPA

Parental  KETEQINGNPVPDENGHIPGWVPVEKNNKQYCWHSSVVNYEFEIALVLKHHPDDSGLLEISAVPLSDLLE
          KE.EQIN.NPVP.EN..IP.WVPV.KNNKQYC.HSSVVNYEFEIALVLKHH.DDSGLLEI.AVPLSDLLE
Retrocopy KEIEQINRNPVPNENRYIPDWVPV*KNNKQYC*HSSVVNYEFEIALVLKHHADDSGLLEITAVPLSDLLE

Parental  QTLELIGTNINGNPYGLGSKKHPLHLLIPHGAFQIRNLPSLKHNDLVSWFEGC
          QTLEL.G.NINGNPY.L.SKKHPLHLLIPHGAFQIRNLPSLKHND..SWFE.C
Retrocopy QTLELTGKNINGNPYALRSKKHPLHLLIPHGAFQIRNLPSLKHNDIMSWFEVC

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	6.14 RPM
SRP007412_cerebellum	0.00 RPM	4.85 RPM
SRP007412_heart	0.00 RPM	0.34 RPM
SRP007412_kidney	0.00 RPM	2.66 RPM
SRP007412_liver	0.00 RPM	2.35 RPM
SRP007412_testis	0.00 RPM	19.27 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_2674 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2674 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3984
Pan troglodytes	retro_ptro_2704

---

Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000011011	1 retrocopy	retro_chof_1262,
Homo sapiens	ENSG00000133641	1 retrocopy	retro_hsap_3984,
Gorilla gorilla	ENSGGOG00000005986	1 retrocopy	retro_ggor_2674 ,
Loxodonta africana	ENSLAFG00000013286	1 retrocopy	retro_lafr_706,
Macaca mulatta	ENSMMUG00000015860	1 retrocopy	retro_mmul_715,
Nomascus leucogenys	ENSNLEG00000005396	1 retrocopy	retro_nleu_1905,
Pan troglodytes	ENSPTRG00000005277	1 retrocopy	retro_ptro_2704,
Rattus norvegicus	ENSRNOG00000006973	1 retrocopy	retro_rnor_1625,
Tupaia belangeri	ENSTBEG00000005256	1 retrocopy	retro_tbel_94,
Tarsius syrichta	ENSTSYG00000014665	1 retrocopy	retro_tsyr_1572,