RetrogeneDB ID: retro_ggor_570

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:28862669..28863204(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GPN3
• Ensembl ID: ENSGGOG00000001697
• Aliases: None
• Description: None

Sequence

>retro_ggor_570
TTTGATTGTCCAGCTTGGACTGAGTTGTACATTCACCTGACTGTGATGAAGCAGCTGGTCCTGCAGCTCGAGCAGTGGAG
TTTCCGAGTCTATGGAGTTTTTCTTGTTGATCCTCAGTTCATGGTGGAGTCATTCAAGTGTATTTCTGGCATCTTGGCAG
TCCTGAGTGCCATGCTCTCTCTAGAAATTCCGCAAGTTAACATCGTGATCAAAATGTAGCTGCAGAGTAAAAAAGCTAAA
AAGGAAACTGAAAGTTTCTAGATCTAGACATGGATTCCTTATGTGATGATTCTACAAGTGGCTTAAGAAGCAAAAAATTC
AAAAAAGTAACTAAAGTTGTATGTGGGCTGATGACTGCAGCATAGTTCTCTTCTTACCTTATGATCAGTCAGATGAAGAA
AGTATGAACATTGTATTATAGCATATTGATTTTTCCATTCAATGTGGAGAAGAGTCAACATTTAAATAACCAAAGGAATA
TGAAAATGAGTCTTCTTCTATGTTTGATGAATATTTTCAAGAACACCAGGATGAA

Alignment

ORF - retro_ggor_570 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.53 %
• Parental protein coverage: 63.38 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  FDCPGQIELYTHLPVMKQLVQQLEQWEFRVCGVFLVDSQFMVESFKFISGILAALSAMISLEIPQVNIMT
          FDCP...ELY.HL.VMKQLV.QLEQW.FRV.GVFLVD.QFMVESFK.ISGILA.LSAM.SLEIPQVNI..
Retrocopy FDCPAWTELYIHLTVMKQLVLQLEQWSFRVYGVFLVDPQFMVESFKCISGILAVLSAMLSLEIPQVNIVI

Parental  KMDLLSKKAKKEIE-KFLDPDMYSLLEDSTSDL-RSKKFKKLTKAICGLIDDYSMVRFLPYDQSDEESMN
          KM.L.SKKAKKE.E.KFLD.DM.SL..DSTS.L....K..K.....C...DD.S.V.FLPYDQSDEESMN
Retrocopy KM*LQSKKAKKETE<KFLDLDMDSLCDDSTSGL<KKQKIQKSN*S-CMWADDCSIVLFLPYDQSDEESMN

Parental  IVLQHIDFAIQYGEDLEFKEPKEHEDESSSMFDEYFQECQDE
          IVL.HIDF.IQ.GE...FK.PKE.E.ESSSMFDEYFQE.QDE
Retrocopy IVL*HIDFSIQCGEESTFK*PKEYENESSSMFDEYFQEHQDE

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	6.33 RPM
SRP007412_cerebellum	0.00 RPM	6.93 RPM
SRP007412_heart	0.00 RPM	2.03 RPM
SRP007412_kidney	0.00 RPM	7.48 RPM
SRP007412_liver	0.00 RPM	4.48 RPM
SRP007412_testis	0.00 RPM	30.77 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_570 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_570 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_652
Macaca mulatta	retro_mmul_2435
Callithrix jacchus	retro_cjac_2969

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009339	1 retrocopy	retro_cjac_2969,
Dasypus novemcinctus	ENSDNOG00000016646	1 retrocopy	retro_dnov_2095,
Homo sapiens	ENSG00000111231	1 retrocopy	retro_hsap_652,
Gorilla gorilla	ENSGGOG00000001697	1 retrocopy	retro_ggor_570 ,
Myotis lucifugus	ENSMLUG00000015510	1 retrocopy	retro_mluc_408,
Macaca mulatta	ENSMMUG00000006494	1 retrocopy	retro_mmul_2435,
Nomascus leucogenys	ENSNLEG00000002831	1 retrocopy	retro_nleu_2030,