RetrogeneDB ID: retro_ggor_1454

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 19:50241873..50242462(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025919
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ENSG00000100836
• Ensembl ID: ENSGGOG00000022683
• Aliases: None
• Description: None

Sequence

>retro_ggor_1454
CATCTTGTGCCCGGGGCCGGTGGGGAGGCCGGGGAGGTTGCACCGAGGGGCGCAGAGGACGATGGGAACGGCCTGGAATC
TGAGGAACTGGAGCCTGAGGAGCTGCTGTTGGAGCCGGAGACGGATGAGGAGCCGCTCCAGCCCCGCGCCCCCATGCCTG
GGAGCTCCAGGACCTGGGCCTCGTTCAGGAGCCACCGGCAGCCAAGAGGAGGGGGAGGAGCCGGGACTGGTCGAGGGTGA
CCCGGGGGGCGGTGCCATTGAGGACCCGGTGCTGGAAGCTATCAAAGCTGGAGTCAGGGAGGTGGAGGAAGAAGCTGAGA
AGCTAAAGGAGCTACAGAACGACGTAGAGAAGCAGATGAATATGAGTCTACCTCCAGGCAATGCTGGCCCAGTGATCACG
TCCATTGAGGAGAAGATGGAGGCTGATGCCCGTTCCATCAATGCTGGCAATGTGGACTGCGGTGCAACAGCAGAAGAGCT
GGAAGCTCACTTTCATGGCTGTGGTTCAGTCAACCATGTTACCATACTCTGTGACAAATTTAGTGGCCATTCCAAAGGGT
TTGCATATATAGAGTTCTCAAAGAGTCAA

Alignment

ORF - retro_ggor_1454 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.08 %
• Parental protein coverage: 65.03 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HLVPGAGGEAGEGAPGGAGDYGNGLESEELEPEELLLEPEPEPEPEEEPPRPRAP-PG-APGPGPGSGAP
          HLVPGAGGEAGE.AP.GA.D.GNGLESEELEPEELLLEPE......EEP..PRAP.PG.APGPGP.SGA.
Retrocopy HLVPGAGGEAGEVAPRGAEDDGNGLESEELEPEELLLEPETD----EEPLQPRAPMPG>APGPGPRSGAT

Parental  GSQEEEEEPGLVEGDPGDGAIEDPELEAIKARVREMEEEAEKLKELQNEVEKQMNMSPPPGNAGPVIMSI
          GSQEE.EEPGLVEGDPG.GAIEDP.LEAIKA.VRE.EEEAEKLKELQN.VEKQMNMS.PPGNAGPVI.SI
Retrocopy GSQEEGEEPGLVEGDPGGGAIEDPVLEAIKAGVREVEEEAEKLKELQNDVEKQMNMSLPPGNAGPVITSI

Parental  EEKMEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKE
          EEKMEADARSI..GNVD.GATAEELEAHFHGCGSVN.VTILCDKFSGH.KGFAYIEFS...
Retrocopy EEKMEADARSINAGNVDCGATAEELEAHFHGCGSVNHVTILCDKFSGHSKGFAYIEFSKSQ

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	0.10 RPM	107.32 RPM
SRP007412_cerebellum	0.16 RPM	146.36 RPM
SRP007412_heart	0.09 RPM	34.65 RPM
SRP007412_kidney	0.12 RPM	105.33 RPM
SRP007412_liver	0.18 RPM	48.09 RPM
SRP007412_testis	4.97 RPM	105.57 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_1454 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1454 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000006884	1 retrocopy	retro_btau_693,
Callithrix jacchus	ENSCJAG00000007960	4 retrocopies	retro_cjac_1263, retro_cjac_2291, retro_cjac_3278, retro_cjac_3836,
Dipodomys ordii	ENSDORG00000002873	1 retrocopy	retro_dord_606,
Homo sapiens	ENSG00000100836	1 retrocopy	retro_hsap_4855,
Gorilla gorilla	ENSGGOG00000022683	2 retrocopies	retro_ggor_1454 , retro_ggor_3030,
Mustela putorius furo	ENSMPUG00000006775	1 retrocopy	retro_mputfur_496,
Mus musculus	ENSMUSG00000022194	1 retrocopy	retro_mmus_403,
Nomascus leucogenys	ENSNLEG00000015009	2 retrocopies	retro_nleu_2066, retro_nleu_3023,
Otolemur garnettii	ENSOGAG00000008710	1 retrocopy	retro_ogar_797,
Pongo abelii	ENSPPYG00000005663	2 retrocopies	retro_pabe_1645, retro_pabe_3773,
Pan troglodytes	ENSPTRG00000006168	2 retrocopies	retro_ptro_1339, retro_ptro_3232,
Sus scrofa	ENSSSCG00000002023	1 retrocopy	retro_sscr_625,