RetrogeneDB ID: retro_ggor_1018

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 14:638978..639680(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NEK2
• Ensembl ID: ENSGGOG00000005439
• Aliases: None
• Description: None

Sequence

>retro_ggor_1018
ATGCCGTCCCGGGCTGAGGACTATGAAGTGTTGTACACCATTGGCACAGGCTCCTATGGCTGCTGCCAGAAGATCTGGAG
GAAGAGTGACAGCAAGATATTAGTTTGGAAAGAACTTGATTATGGCTTCATGACAGAAGCTGAGAAACAGATGCTTATTT
CTGAAGTGAATTTGCTTTGTGAACTGAAAAATCCAAACGTCGTTCATTACTATGATCGTATTATTGACCAGACCAACACA
ACACTGTACATTGTAATGGAATATTGTGAAGAAGGAGACCTGGCTAGTGTAATTACAAAGGGAACCAAGGAAAGGCAATA
CTTAGATGAAGAGTTTGTTCTTCGAGTGACGACTCAGTTGACTCTGGCCCTGAAGTAATGCCACAGACGAAGTGATGGTG
ATCATACTGTAGTGTGTCGGGATCTGAAACCAGCCAGTGTTTTCCTGGATGGGAAGCAAAACATCAAGCTTGGAGATTTG
GGGCTAGCCGGAATATTAAACCACGACACGAGTTTTGCAAACACATTTGTTGGCACACCTTATTACATGTCTCCTGAACA
AACGAATCACATGTCCTACAATGAGAAACCAGATATCTGGTCATTGGGCTGCTTGCCCTATGAGTCACGTGCATTAATGC
CTCCATTTACAGCCAGAAAGAACTCGCTGGAAAAATCAGAGAAGGCAAATTCAGGCGAATTC

Alignment

ORF - retro_ggor_1018 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.33 %
• Parental protein coverage: 52.36 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPSRAEDYEVLYTIGTGSYGRCQKIRRKSDGKILVWKELDYGSMTEAEKQMLVSEVNLLRELKHPNIVRY
          MPSRAEDYEVLYTIGTGSYG.CQKI.RKSD.KILVWKELDYG.MTEAEKQML.SEVNLL.ELK.PN.V.Y
Retrocopy MPSRAEDYEVLYTIGTGSYGCCQKIWRKSDSKILVWKELDYGFMTEAEKQMLISEVNLLCELKNPNVVHY

Parental  YDRIIDRTNTTLYIVMEYCEGGDLASVITKGTKERQYLDEEFVLRVMTQLTLALKECHRRSDGGHTVLHR
          YDRIID.TNTTLYIVMEYCE.GDLASVITKGTKERQYLDEEFVLRV.TQLTLALK.CHRRSDG.HTV..R
Retrocopy YDRIIDQTNTTLYIVMEYCEEGDLASVITKGTKERQYLDEEFVLRVTTQLTLALK*CHRRSDGDHTVVCR

Parental  DLKPANVFLDGKQNVKLGDFGLARILNHDTSFAKTFVGTPYYMSPEQMNCMSYNEKSDIWSLGCLLYELC
          DLKPA.VFLDGKQN.KLGD.GLA.ILNHDTSFA.TFVGTPYYMSPEQ.N.MSYNEK.DIWSLGCL.YE..
Retrocopy DLKPASVFLDGKQNIKLGDLGLAGILNHDTSFANTFVGTPYYMSPEQTNHMSYNEKPDIWSLGCLPYESR

Parental  ALMPPFTAFSQK-ELAGKIREGKF
          ALMPPFTA.....E...K...G.F
Retrocopy ALMPPFTARKNSLEKSEKANSGEF

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	1.92 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.16 RPM
SRP007412_kidney	0.00 RPM	0.25 RPM
SRP007412_liver	0.00 RPM	0.08 RPM
SRP007412_testis	0.10 RPM	114.89 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_1018 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1018 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000117650	4 retrocopies	retro_hsap_1301, retro_hsap_1385, retro_hsap_2317, retro_hsap_2538,
Gorilla gorilla	ENSGGOG00000005439	1 retrocopy	retro_ggor_1018 ,
Myotis lucifugus	ENSMLUG00000011281	1 retrocopy	retro_mluc_22,
Pan troglodytes	ENSPTRG00000001953	2 retrocopies	retro_ptro_1691, retro_ptro_890,
Rattus norvegicus	ENSRNOG00000004487	1 retrocopy	retro_rnor_2552,