RetrogeneDB ID: retro_ggor_1924

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:33488835..33489126(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: POLE4
• Ensembl ID: ENSGGOG00000004491
• Aliases: None
• Description: None

Sequence

>retro_ggor_1924
CCTGGTGGGGAGGCATAGGTCCCACAGCCCCAAGCCCCGACGAGAGTGCCTGGGGCTCGTCCCTCGAGGCTGCCTCGGGC
GCCAGCGAAGGCCTTGGCGAAGGCTGACCCCAACGAGACACGGGCGGGACAGAGAACAGTCATTCTGGCCTGAGCCAGGG
AACTGTGTGTGGAGACCATTGCAAAAGATGCCTACTGCTGTGCTCAACAGGTAAACAGGAAAACCCTCCAGAGGAGAGAT
TTGGATAATGCAATAGAAGCTGTGGATGAATCTGCTTTTTTGGAAGGTACT

Alignment

ORF - retro_ggor_1924 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.53 %
• Parental protein coverage: 83.76 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PAGEAAASQPQAPTSVPGARLSRLPLARVKALVKADPDVTLAGQEAIFILARAAELFVETIAKDAYCCAQ
          P.GEA...QPQAPT.VPGAR.SRLP.A..KAL.KADP..T.AGQ....ILA.A.EL.VETIAKDAYCCAQ
Retrocopy PGGEA*VPQPQAPTRVPGARPSRLPRAPAKALAKADPNETRAGQRTV-ILA*ARELCVETIAKDAYCCAQ

Parental  QGKRKTLQRRDLDNAIEAVDEFAFLEGT
          Q..RKTLQRRDLDNAIEAVDE.AFLEGT
Retrocopy QVNRKTLQRRDLDNAIEAVDESAFLEGT

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	13.43 RPM
SRP007412_cerebellum	0.04 RPM	5.36 RPM
SRP007412_heart	0.00 RPM	9.19 RPM
SRP007412_kidney	0.08 RPM	17.66 RPM
SRP007412_liver	0.03 RPM	10.74 RPM
SRP007412_testis	0.10 RPM	14.92 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_1924 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1924 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2765
Pan troglodytes	retro_ptro_1872
Pongo abelii	retro_pabe_2246

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017073	1 retrocopy	retro_amel_394,
Callithrix jacchus	ENSCJAG00000017156	1 retrocopy	retro_cjac_1087,
Cavia porcellus	ENSCPOG00000027003	1 retrocopy	retro_cpor_1102,
Felis catus	ENSFCAG00000005983	1 retrocopy	retro_fcat_790,
Homo sapiens	ENSG00000115350	1 retrocopy	retro_hsap_2765,
Gorilla gorilla	ENSGGOG00000004491	1 retrocopy	retro_ggor_1924 ,
Gorilla gorilla	ENSGGOG00000007360	2 retrocopies	retro_ggor_2865, retro_ggor_2896,
Mustela putorius furo	ENSMPUG00000008356	1 retrocopy	retro_mputfur_305,
Nomascus leucogenys	ENSNLEG00000001111	1 retrocopy	retro_nleu_670,
Pongo abelii	ENSPPYG00000012258	1 retrocopy	retro_pabe_2246,
Pan troglodytes	ENSPTRG00000012105	1 retrocopy	retro_ptro_1872,