RetrogeneDB ID: retro_ggor_1506

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 20:28533806..28534525(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000027610
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: DKKL1
• Ensembl ID: ENSGGOG00000016382
• Aliases: None
• Description: None

Sequence

>retro_ggor_1506
GAAACCTCCCTCACTCCCCCCGCAATGCGGCATCCGCTGGTCCTGCTGCTGTTCCTCTCTGCCCTGGTGACCTCCTCCAC
TGCAGCCTCTATCCACGATGCTCATGCCCAAGAGAGCTCCTTGGGTCTTACAGGCCTCCAGAACCTACTCCAAGGCTTCA
GCCGACTTTTCCTGAAAGACGACCTGCTTCGGGGCATAGACAGCTTCTTCTCTACCCCCATGGACTTCCGGGGCCTCCCT
AGGAACTACCAACAAGAGGAGAACCAGGAGCACCAGCTGGGGAACAACACCCTCTCCAGCCACCTCCATATTGACAAGGT
GACCGACAATAAGACAGGAGAGGTGCTGATCTCCGAGAAGGTGGTGGCATCCATCCAGCCGGCGGAGGGGAGTTTCGAGG
GTAACTGGAAGGCACCCAGGATGGAGGAGGCGGCGGCCCTGGTGTCCATCCGGAAGGCTATGGACAGCTTCCACGCAGAG
CTCCAGCCCCGGGTGGCCTTCTGGATCATGAAGCTGCCACGGTGGAGGTCCCACCACAATGTCCTGGAGGGCGGCCTCTG
GCTCAGTGAGAAGCGACACCTCCTGCAGGTCATCCAGGATGGGCTCCACAAGGGGACCCGCGAGGACGTCCTAAAAGAGG
GGACACAGGGCTCCTCCCACTCCGGGCTGTCCCCCGAAAGACCCACTTACTGTACAACCTCAGGCTCTCCTGGCAGCTA

Alignment

ORF - retro_ggor_1506 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.59 %
• Parental protein coverage: 99.17 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EASPPAPARRHLLVLLLLLSTLVIPSTAAPIHDADAQESSLGLTGLQSLLQGFSRLFLKGNLLRGIDSLF
          E.S...PA.RH.LVLLL.LS.LV..STAA.IHDA.AQESSLGLTGLQ.LLQGFSRLFLK..LLRGIDS.F
Retrocopy ETSLTPPAMRHPLVLLLFLSALVTSSTAASIHDAHAQESSLGLTGLQNLLQGFSRLFLKDDLLRGIDSFF

Parental  SAPMDFRGLPGNYHKEENQEHQLGNNTLSSHLQIDKMTDNKTGEVLISENVVASIQPAEGSFKGDLKVPR
          S.PMDFRGLP.NY..EENQEHQLGNNTLSSHL.IDK.TDNKTGEVLISE.VVASIQPAEGSF.G..K.PR
Retrocopy STPMDFRGLPRNYQQEENQEHQLGNNTLSSHLHIDKVTDNKTGEVLISEKVVASIQPAEGSFEGNWKAPR

Parental  MEEKEALVPIQKAMDSFHTELHPRVAFWIIKLPRRRSHQDALEGGHWLSEKRHRLQAIRDGLRKGTHKGV
          MEE..ALV.I.KAMDSFH.EL.PRVAFWI.KLPR.RSH...LEGG.WLSEKRH.LQ.I.DGL.KGT...V
Retrocopy MEEAAALVSIRKAMDSFHAELQPRVAFWIMKLPRWRSHHNVLEGGLWLSEKRHLLQVIQDGLHKGTREDV

Parental  LEEGTESSSHSRLS-PRKTHLLYILRPSRQL
          L.EGT..SSHS.LS.PRKTHLLY.LR.S.QL
Retrocopy LKEGTQGSSHSGLS<PRKTHLLYNLRLSWQL

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	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.13 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	0.03 RPM
SRP007412_testis	0.00 RPM	142.97 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_1506 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1506 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000000102	1 retrocopy	retro_cjac_1433,
Homo sapiens	ENSG00000104901	1 retrocopy	retro_hsap_2421,
Gorilla gorilla	ENSGGOG00000016382	1 retrocopy	retro_ggor_1506 ,
Macaca mulatta	ENSMMUG00000014794	1 retrocopy	retro_mmul_627,
Pan troglodytes	ENSPTRG00000011292	1 retrocopy	retro_ptro_1395,