RetrogeneDB ID: retro_ggor_1103

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 14:46576568..46576862(-)
• Located in intron of: ENSGGOG00000008902

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000173674
• Ensembl ID: ENSGGOG00000012186
• Aliases: None
• Description: None

Sequence

>retro_ggor_1103
GTATATAAAGGGGATAGACAAGAGTAGGTAATCAAAATGAAGGAAAATAGATGATTAGAATCAATGTGCTTTGATGGTGT
AAAGAGGTTATGTCATATGAGAGGAAAATTGAGAAAAAAGAGGTGAATAAATACCTCAGACATTATACTGGTTGGTCTGT
GAGACTATTAGGATAACAAATCTGATGTTATTTTAAAATAAAATGCACATGAAGCTAGCAGTCTAAAGGCATATGGCAAG
TTTCTAGAATCTGCTAAAATCAATAAAACCAATATACTTGGTCCTAGAGATGAT

Alignment

ORF - retro_ggor_1103 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71. %
• Parental protein coverage: 69.44 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VFKEDGQEYAQVIKMLGNGRLEAMCFDGVKRLCHIRGKLRKKVWINTSDIILVGLRDYQDNKADVILKYN
          V.K.D.QE...VIKM..N..LE.MCFDGVKRLCH.RGKLRKK..INTSDIILVGL.DY.DNK.DVILK.N
Retrocopy VYKGDRQE*--VIKMKENR*LESMCFDGVKRLCHMRGKLRKKR*INTSDIILVGL*DY*DNKSDVILK*N

Parental  ADEARSLKAYGELPEHAKINETDTFGPGDD
          A.EA.SLKAYG...E.AKIN.T...GP.DD
Retrocopy AHEASSLKAYGKFLESAKINKTNILGPRDD

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	17.84 RPM
SRP007412_cerebellum	0.04 RPM	14.10 RPM
SRP007412_heart	0.00 RPM	3.41 RPM
SRP007412_kidney	0.04 RPM	15.74 RPM
SRP007412_liver	0.00 RPM	12.00 RPM
SRP007412_testis	0.00 RPM	14.40 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_1103 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1103 has 5 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1431
Pan troglodytes	retro_ptro_978
Pongo abelii	retro_pabe_1185
Sus scrofa	retro_sscr_948
Equus caballus	retro_ecab_634

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000005371	1 retrocopy	retro_cjac_66,
Dipodomys ordii	ENSDORG00000011536	1 retrocopy	retro_dord_484,
Homo sapiens	ENSG00000173674	2 retrocopies	retro_hsap_1431, retro_hsap_350,
Gorilla gorilla	ENSGGOG00000012186	3 retrocopies	retro_ggor_1103 , retro_ggor_363, retro_ggor_968,
Myotis lucifugus	ENSMLUG00000012977	2 retrocopies	retro_mluc_250, retro_mluc_3,
Monodelphis domestica	ENSMODG00000027820	1 retrocopy	retro_mdom_274,
Mus musculus	ENSMUSG00000067194	1 retrocopy	retro_mmus_264,
Otolemur garnettii	ENSOGAG00000008182	1 retrocopy	retro_ogar_128,
Pan troglodytes	ENSPTRG00000022504	1 retrocopy	retro_ptro_978,
Pteropus vampyrus	ENSPVAG00000003521	2 retrocopies	retro_pvam_780, retro_pvam_92,
Rattus norvegicus	ENSRNOG00000005736	1 retrocopy	retro_rnor_24,
Sus scrofa	ENSSSCG00000029864	1 retrocopy	retro_sscr_948,