RetrogeneDB ID: retro_ggor_1385

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 18:58319578..58320418(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GTF2H1
• Ensembl ID: ENSGGOG00000008405
• Aliases: None
• Description: None

Sequence

>retro_ggor_1385
ATGGCAACCTCCTCTGAAGAAGTTTTGCTGATTGTAAAGAAAGTGCGTCAAAAGAAGCAGGATGGAGCTCTATACCTCAT
GGCAGAAAGAATTGCTTGGGCACCTGAAGGCAAAAATAGATTTACAGTCAGCCGTATGTATGTAGATGTTAAATGCCAGA
AAATTAGTCCAGAAGGCAAAGCTACAATTTAGCATCAGCTGGACCTACATGCAGGAGATACAATTAACTTCCGTTTTCCC
AATGAAAACACAGCAGTGAAAGAGCAAGATGCAGTAAAGGACCTTCAGCAGCTGCTCCCCAAATTCAAGAGGAAAGCAAA
TAAAGAACTGGAAGAGAAGAACAGAATGCTGCAAGAAGATCCTGTTTTGTTTCAGCTTTATAAAGATCTTGTTGTGAGCC
AAGTGATGAGTGCTGAGGAATTCTGGGCCAATCATTTAAATGGGAATGCAACAGAAAATTCTTCCACATCCAATCATAAG
CAGGATGTTGGCATTTCTGCTGCATATCTGGCTGATGTCTGGCCTGAAACCGATGGCTGTAACGGTCTGAGATATAATTT
AACTTCTGATATCATTGAGTTCATATTTAGGACCTATCCAGCAGTGAAAATGAAATATGCAGAAAGTGTTCCCCACAACA
TGACAGAGAAGGGATTCTGGACACGTTTTTTCCAGTCCCATTATTTTCACAGGGATCGGCTGAATACAGGGTCAAAGGAT
CTCTCTGCAGAATGTGCCAAAATAGATGAAAAAGGCCTTAAAACAATGGTTTCATTAGGAGTGAAAAACCCACTACTAGA
ATTAACAGCTTTGGGAAATAAACCAGAGTCCAGTGAATAT

Alignment

ORF - retro_ggor_1385 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.9 %
• Parental protein coverage: 50.91 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATSSEEVLLIVKKVRQKKQDGALYLMAERIAWAPEGKDRFTISHMYADIKCQKISPEGKAKIQLQLVLH
          MATSSEEVLLIVKKVRQKKQDGALYLMAERIAWAPEGK.RFT.S.MY.D.KCQKISPEGKA.I..QL.LH
Retrocopy MATSSEEVLLIVKKVRQKKQDGALYLMAERIAWAPEGKNRFTVSRMYVDVKCQKISPEGKATI*HQLDLH

Parental  AGDTTNFHFSNESTAVKERDAVKDLLQQLLPKFKRKANKELEEKNRMLQEDPVLFQLYKDLVVSQVISAE
          AGDT.NF.F.NE.TAVKE.DAVKD.LQQLLPKFKRKANKELEEKNRMLQEDPVLFQLYKDLVVSQV.SAE
Retrocopy AGDTINFRFPNENTAVKEQDAVKD-LQQLLPKFKRKANKELEEKNRMLQEDPVLFQLYKDLVVSQVMSAE

Parental  EFWANRLNVNATDSSSTSNHKQDVGISAAFLADVRPQTDGCNGLRYNLTSDIIESIFRTYPAVKMKYAEN
          EFWAN.LN.NAT..SSTSNHKQDVGISAA.LADV.P.TDGCNGLRYNLTSDIIE.IFRTYPAVKMKYAE.
Retrocopy EFWANHLNGNATENSSTSNHKQDVGISAAYLADVWPETDGCNGLRYNLTSDIIEFIFRTYPAVKMKYAES

Parental  VPHNMTEKEFWTRFFQSHYFHRDRLNTGSKDLFAECAKIDEKGLKTMVSLGVKNPLLDLTALEDKPLDEG
          VPHNMTEK.FWTRFFQSHYFHRDRLNTGSKDL.AECAKIDEKGLKTMVSLGVKNPLL.LTAL..KP....
Retrocopy VPHNMTEKGFWTRFFQSHYFHRDRLNTGSKDLSAECAKIDEKGLKTMVSLGVKNPLLELTALGNKPESSE

Parental  Y
          Y
Retrocopy Y

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	16.59 RPM
SRP007412_cerebellum	0.00 RPM	14.38 RPM
SRP007412_heart	0.00 RPM	2.35 RPM
SRP007412_kidney	0.00 RPM	18.97 RPM
SRP007412_liver	0.03 RPM	11.40 RPM
SRP007412_testis	0.00 RPM	59.16 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_1385 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1385 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000110768	1 retrocopy	retro_hsap_1892,
Gorilla gorilla	ENSGGOG00000008405	1 retrocopy	retro_ggor_1385 ,
Monodelphis domestica	ENSMODG00000006540	1 retrocopy	retro_mdom_1210,
Nomascus leucogenys	ENSNLEG00000017760	1 retrocopy	retro_nleu_1473,
Otolemur garnettii	ENSOGAG00000000710	1 retrocopy	retro_ogar_338,
Pan troglodytes	ENSPTRG00000003420	1 retrocopy	retro_ptro_1269,