RetrogeneDB ID: retro_ggor_2622

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:116809052..116809697(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GTF3A
• Ensembl ID: ENSGGOG00000008407
• Aliases: None
• Description: None

Sequence

>retro_ggor_2622
TCCCTTCCCTTGTTCCCCCTTCACACACTTCTTAGGAGGGTCATCTGCTACTTCCCCAGTGTGGCACCACTTACAAAAAG
GCCTGGAAGCTTAATGTGCACCTGTAATCACATGGGGAAGAAACCATTTGTTTATGACTGTGAAGGGTGTGGCAAGACCC
ACCTCAAGAGACTAACATCTGAGTTGTCATGTCCTGATCGTACTGCAGACAAGCCATATGTTTGTGCAGCTAGTAGCTGT
GATCTAAAAATTCAACACAAAATCAAACTTGAAGAGACATTTTACAGGCAAACATGAAAACCAGCCAAAAAAAAAAATAC
ATATGCAATTTTGGAGGTTGGAAGAAGACCTTTACAAACATCAGCAGCTGAAAAACCATCACTGCCAGCATACCAATGAA
CCACTATTCAACTGTACCCAGGAAAGATGTGGGAAGCATTTTTCCCCATCCATCCAGCAAGCAGCAAGGCCCATGAGGGC
TCTATATGTCAAAAAGCGTGTTCTTTTGTGGTGAAAGCATGAACAGAAGTTTTGAAACATGTGAGAGAAACTTATAAAAA
GGAAACAACATATGAAGCAGGCCAGAAAACATTTAAACATTATCTTAAGCAACATATGAACATTCATGCCCCAGAAAGGG
ATATT

Alignment

ORF - retro_ggor_2622 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.85 %
• Parental protein coverage: 60.0 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  SAPTPPRPALPRRFICSFPD-CSANYSKAWKLDAHLCKHTGE-RPFVCDYEGCGKAFI-RDYHLSRHIL-
          S.P..P...L.RR.IC.FP..C...Y.KAWKL..HL..H.GE..PFV.D.EGCGK....RD.HLS.H.L.
Retrocopy SLPLFPLHTLLRRVICYFPS<CGTTYKKAWKLNVHL*SH-GE>KPFVYDCEGCGKTHL>RD*HLSCHVL<

Parental  THTGEKPFVCAANGCDQ-KFNTKSNLKKHFERKHENQQKQYI-CSFEDCKKTFKKHQQLKIHQCQHTNEP
          ..T..KP.VCAA..CD..KFNTKSNLK.HF..KHENQ........F........KHQQLK.H.CQHTNEP
Retrocopy DRTADKPYVCAASSCDL>KFNTKSNLKRHFTGKHENQXXXXXHMQFWRLEEDLYKHQQLKNHHCQHTNEP

Parental  LFKCTQEGCGKHFASPSKLKRHAK-AHEGYVCQKGCSFVAKTWTELLKHVRETHKEEILCEVCRKTFKRK
          LF.CTQE.CGKHF.SPS.....A..AHEG..CQK.CSFV.K..TE.LKHVRET.K.E...E...KTFK..
Retrocopy LFNCTQERCGKHF-SPS-IQQAAR<AHEGSICQKACSFVVKA*TEVLKHVRETYKKETTYEAGQKTFKH-

Parental  DYLKQHMKTHAPERDV
          .YLKQHM..HAPERD.
Retrocopy -YLKQHMNIHAPERDI

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	29.25 RPM
SRP007412_cerebellum	0.00 RPM	28.41 RPM
SRP007412_heart	0.00 RPM	14.88 RPM
SRP007412_kidney	0.00 RPM	53.32 RPM
SRP007412_liver	0.00 RPM	48.32 RPM
SRP007412_testis	0.00 RPM	39.78 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_2622 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2622 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000019373	1 retrocopy	retro_cjac_3066,
Equus caballus	ENSECAG00000014803	1 retrocopy	retro_ecab_866,
Felis catus	ENSFCAG00000006982	1 retrocopy	retro_fcat_426,
Gasterosteus aculeatus	ENSGACG00000003107	1 retrocopy	retro_gacu_6,
Gorilla gorilla	ENSGGOG00000008407	1 retrocopy	retro_ggor_2622 ,
Microcebus murinus	ENSMICG00000014763	1 retrocopy	retro_mmur_368,
Macaca mulatta	ENSMMUG00000009029	1 retrocopy	retro_mmul_1632,
Nomascus leucogenys	ENSNLEG00000000331	2 retrocopies	retro_nleu_1134, retro_nleu_214,
Oreochromis niloticus	ENSONIG00000014134	1 retrocopy	retro_onil_8,
Vicugna pacos	ENSVPAG00000004995	1 retrocopy	retro_vpac_456,