RetrogeneDB ID: retro_ggor_2071

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:160004808..160005117(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKIRIN2
• Ensembl ID: ENSGGOG00000002448
• Aliases: None
• Description: None

Sequence

>retro_ggor_2071
GAAACGAGTTTCCAAGACACAGATCCGTGTTGTACTTCTGATGCACATGCATTTCTCCTCAGTGGATCAGCTTCACCAGG
AACTTCATCTGCAGCATCCTCACCATTAAAAAAAGAACAGCCCTTATTTACTCTATGGCAGGTTGGGATGATCTGTGAAC
ATTAGTTGAAAGAACATGAAGAGAAAGTTTGGGAAGAATATGAAGAATATTGAATACAAAACTTGCAGAACAATAATGAT
GCATCTGTGAAGTTTACACATGATCAAATAATGTGACGATATGGAGAAGAGCCTTCTAGTTATGTTTCA

Alignment

ORF - retro_ggor_2071 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.05 %
• Parental protein coverage: 51.72 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ETSFQQTDPCCTSDAQPHAFLLSGPASPGTSSAASSPLKKEQPLFTLRQVGMICERLLKEREEKVREEYE
          ETSFQ.TDPCCTSDA..HAFLLSG.ASPGTSSAASSPLKKEQPLFTL.QVGMICE..LKE.EEKV.EEYE
Retrocopy ETSFQDTDPCCTSDA--HAFLLSGSASPGTSSAASSPLKKEQPLFTLWQVGMICEH*LKEHEEKVWEEYE

Parental  E-ILNTKLAEQ-YDAFVKFTHDQIMRRYGEQPASYVS
          E.ILNTKLAEQ..DA.VKFTHDQIM.RYGE.P.SYVS
Retrocopy E<ILNTKLAEQ>NDASVKFTHDQIM*RYGEEPSSYVS

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	24.22 RPM
SRP007412_cerebellum	0.00 RPM	21.31 RPM
SRP007412_heart	0.00 RPM	5.88 RPM
SRP007412_kidney	0.00 RPM	15.62 RPM
SRP007412_liver	0.00 RPM	13.06 RPM
SRP007412_testis	0.00 RPM	44.44 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_2071 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2071 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2991
Pan troglodytes	retro_ptro_2023
Pongo abelii	retro_pabe_2477
Macaca mulatta	retro_mmul_1914

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Parental genes homology:

Parental genes homology involve 14 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003082	1 retrocopy	retro_cfam_1014,
Choloepus hoffmanni	ENSCHOG00000012160	1 retrocopy	retro_chof_413,
Callithrix jacchus	ENSCJAG00000000769	1 retrocopy	retro_cjac_2231,
Dasypus novemcinctus	ENSDNOG00000000549	1 retrocopy	retro_dnov_1788,
Homo sapiens	ENSG00000135334	1 retrocopy	retro_hsap_2991,
Gorilla gorilla	ENSGGOG00000002448	1 retrocopy	retro_ggor_2071 ,
Gorilla gorilla	ENSGGOG00000006053	1 retrocopy	retro_ggor_2920,
Macaca mulatta	ENSMMUG00000002824	1 retrocopy	retro_mmul_1914,
Pongo abelii	ENSPPYG00000016831	1 retrocopy	retro_pabe_2477,
Pan troglodytes	ENSPTRG00000018409	1 retrocopy	retro_ptro_2023,
Rattus norvegicus	ENSRNOG00000008288	1 retrocopy	retro_rnor_1499,
Sorex araneus	ENSSARG00000006084	1 retrocopy	retro_sara_701,
Sarcophilus harrisii	ENSSHAG00000011555	2 retrocopies	retro_shar_363, retro_shar_579,
Sus scrofa	ENSSSCG00000004307	1 retrocopy	retro_sscr_897,