RetrogeneDB ID: retro_ggor_2120

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:127738969..127739761(-)
• Located in intron of: ENSGGOG00000034831

Retrocopy information

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

Parental gene information

• Parental gene symbol: FKBP4
• Ensembl ID: ENSGGOG00000010471
• Aliases: None
• Description: None

Sequence

>retro_ggor_2120
GAGAATCTGGATCTGCCTTATGGTCTGGAGAGGGCCATTCAGTGCATGTAGAAAGGAGAACATTCCATTGTGTACCTCAA
ACCCAGCTATGCTTTTGGCAGTGTTGGGAAGGAAAAGTTCCAAATCCCACCAAATGCCTAGCTGAAATATGAATTACACC
TCAAGAGTTTTGAAAAGACCAAGGAATCTTGGGAGATGAATTCAGAAGAGAAGCTGGAACAGAGCACCACAGTGAAAGAG
TGGGACACTGTGTACTTCAAGGAAGGCAAATACAAGCAAGCTTTACTATAATATAAGAGGATTGTGTCCTGGCTAGAATA
TAAGTCTAGTTTTTCCAATGAGGAAACACAGAAGGCACAGGCCCTTCAACTGGCCTCTTACCTCAACCTGGCCATGTGTT
ATCTGAAACTACAGGCCTTCTCTGCTGCCACTGAAAACTGTAACAAGGCCTTGGAACTGGACAGCAACAATGAGAAGGGC
CTGTTCCATTGGGGAGAGGCCCACCTGGCTGTGAATGACTTTGAACTGGCACAGGCTGACTTCCAGAAGGTCTTGCAGCT
CTACCCCAACAACGAAGCCACCAAGGCCCAGCTGGCTGTGTGCCAGCAGCAGATCTGCAGGCAGCTTACCTGGGAGAAGA
CGCCCTATGCCAACACGTTTGAGAGGCTGGCCGAGGAAGAGAACAAGGCCAAGGCAGAGGCTTCCTCAGGAGACAATCCC
ACTGACACAGAGATGAAGGAGGAGCAGTAGAGCAACACCACAGAGAGCCAGTCTCAAGTGGAGACAGAAGCA

Alignment

ORF - retro_ggor_2120 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.12 %
• Parental protein coverage: 62.12 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ENLDLPYGLERTIQRMEKGEHSIVYLKPSYAFGSVGKEKFQIPPNAELKYELHLKSFEKAKESWEMNSEE
          ENLDLPYGLER.IQ.M.KGEHSIVYLKPSYAFGSVGKEKFQIPPNA.LKYELHLKSFEK.KESWEMNSEE
Retrocopy ENLDLPYGLERAIQCM*KGEHSIVYLKPSYAFGSVGKEKFQIPPNA*LKYELHLKSFEKTKESWEMNSEE

Parental  KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAF
          KLEQST.VKE..TVYFKEGKYKQALL.YK.IVSWLEY.SSFSNEE.QKAQAL.LAS.LNLAMC.LKLQAF
Retrocopy KLEQSTTVKEWDTVYFKEGKYKQALL*YKRIVSWLEYKSSFSNEETQKAQALQLASYLNLAMCYLKLQAF

Parental  SAAIESCNKALELDSNNEKGLFRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLA
          SAA.E.CNKALELDSNNEKGLF..GEAHLAVNDFELA.ADFQKVLQLYPNN.A.K.QLAVCQQ.I.RQL.
Retrocopy SAATENCNKALELDSNNEKGLFHWGEAHLAVNDFELAQADFQKVLQLYPNNEATKAQLAVCQQQICRQLT

Parental  REKKLYANMFERLAEEENKAKAEASSGDHPTDTEMKEEQKSNTAGSQSQVETEA
          .EK..YAN.FERLAEEENKAKAEASSGD.PTDTEMKEEQ.SNT..SQSQVETEA
Retrocopy WEKTPYANTFERLAEEENKAKAEASSGDNPTDTEMKEEQ*SNTTESQSQVETEA

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	193.45 RPM
SRP007412_cerebellum	0.00 RPM	224.65 RPM
SRP007412_heart	0.00 RPM	53.06 RPM
SRP007412_kidney	0.04 RPM	119.15 RPM
SRP007412_liver	0.00 RPM	74.86 RPM
SRP007412_testis	0.31 RPM	370.27 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_2120 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2120 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3085
Pan troglodytes	retro_ptro_2083

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000007605	1 retrocopy	retro_btau_561,
Callithrix jacchus	ENSCJAG00000018746	1 retrocopy	retro_cjac_436,
Dasypus novemcinctus	ENSDNOG00000011244	1 retrocopy	retro_dnov_894,
Homo sapiens	ENSG00000004478	5 retrocopies	retro_hsap_3085, retro_hsap_4162, retro_hsap_4165, retro_hsap_4264, retro_hsap_4266,
Gorilla gorilla	ENSGGOG00000001729	3 retrocopies	retro_ggor_1494, retro_ggor_2344, retro_ggor_933,
Gorilla gorilla	ENSGGOG00000010471	4 retrocopies	retro_ggor_2120 , retro_ggor_2852, retro_ggor_2854, retro_ggor_2855,
Macaca mulatta	ENSMMUG00000007405	1 retrocopy	retro_mmul_1969,
Nomascus leucogenys	ENSNLEG00000002835	1 retrocopy	retro_nleu_2291,
Pongo abelii	ENSPPYG00000004149	4 retrocopies	retro_pabe_2607, retro_pabe_2611, retro_pabe_3383, retro_pabe_3518,
Pan troglodytes	ENSPTRG00000004529	3 retrocopies	retro_ptro_2083, retro_ptro_3000, retro_ptro_3001,