RetrogeneDB ID: retro_ggor_2854

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:43275048..43276315(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000022203
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

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

Sequence

>retro_ggor_2854
AAGGTCATCAAGAGAGAGGGCACAGGTACAGAGATGCCCATGACTGGGGACCTAGTCTTTGTCCACTACACTGGCTGGCT
GTTAGAGGGCACAAAGTTTGACTCCAGTGTGGATCGCAAGGACAAATTCTCCTTTGACCTGGGAAAAGGGGAGGTCATCA
AGGCTTGGGACATTACCGTAGCAACCATGAAGGTGGGGGAGGTGGGCCACATCACCTGCAAACCAGAATATGCCTAGAGT
TCAGCAGACAGTCCTCCAACGATCCCCCCATAACGCCACGCTTGTGTTTGGGGTGGAATTGTTTAAGGAAGAAGATGTGA
CGGAAGAGGAAGATGGGGGAATCATCCGCAGAATAGGGACTCGCGGTGAAGGCTATGTCAAGCCCGATGAGGGCGCTATG
GTGGAGGTTGCGCTGGAAGGGTGCTGCAAGGACCAGCTCTTTGACCAACGGGCGCTCCGCTTTGAGGTTAGCGACGGGGA
GAACCTGGATCTGCCTTATGATCTGGAGAGGGCCATTCAGCACTTGGAGAAAGGAGAACATTCCACTGTGTACCTCAAGC
CCAGCTATGCTTTTGGCAGTGTTGGGAAGGAAAAGTTCCAAATCCCACCAAATGCCGAGCTGAAATATGAATTACATCTC
AAGAGTTTTGAAAAGGCCAAGGAATCTTGGGAGATGATTTCAGAAGAGAAGCCGGAACAGAACACCATAGTGAAAGAGCA
GGGCAGTGTGTACTTCAACAAAGGCAAATACAAGCAAGCTTTACTACAGTGTAAGAAGATTGTGTCCTGGCTGGAATATG
AGTCTAGTTTTTCCAATGAGGAAGCACAGAAGGCACAGGCGCTTCGACTGGCCTCTCACCTCGACCTGGCCATGTGTCAG
CTGAAACTACAGGCCTTCTCTGCTGCCATTGAAAGCTGTAACAGGGCCCTAGAACTGGACAGCAACAACGAGAAGGGCCC
CTTCCGCCGGGGAGAGGCCCACCTGGCAGTGAATGACTTTGAACTGGCATGGGCTGACTTCCAGAAGGTCCTGCAGCTCT
ACCCCAACAACAAAGCCGCCAGGGCCCAGCTGGCTGTGTGTCAGCAGCGGATCCACAGGCAGCTTGCCCGGAAGAAGTTC
TATGCCAAAATGTTTGAGAGGCTGGCTGAGGAGGAAAACAAGGCCAAGGCAGAGGCTTGCTCAGGAGACCATCCCACTGA
CACAGAGATGAAGGTGGAGTGGAAGAGCAACACGGCAGGGAGCTAGTCTCAGGTGGAGACAGAAGCA

Alignment

ORF - retro_ggor_2854 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.62 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QVIKREGTGTEMPMIGDRVFVHYTGWLLDGTKFDSSLDRKDKFSFDLGKGEVIKAWDIAIATMKVGEVCH
          .VIKREGTGTEMPM.GD.VFVHYTGWLL.GTKFDSS.DRKDKFSFDLGKGEVIKAWDI..ATMKVGEV.H
Retrocopy KVIKREGTGTEMPMTGDLVFVHYTGWLLEGTKFDSSVDRKDKFSFDLGKGEVIKAWDITVATMKVGEVGH

Parental  ITCKPEYAYGSAGSPPKIPP-NATLVFEVELFEFKGEDLTEEEDGGIIRRIQTRGEGYAKPNEGAIVEVA
          ITCKPEYA..SA.SPP.IPP.NATLVF.VELF..K.ED.TEEEDGGIIRRI.TRGEGY.KP.EGA.VEVA
Retrocopy ITCKPEYA*SSADSPPTIPP>NATLVFGVELF--KEEDVTEEEDGGIIRRIGTRGEGYVKPDEGAMVEVA

Parental  LEGYYKDKLFDQRELRFEIGEGENLDLPYGLERTIQRMEKGEHSIVYLKPSYAFGSVGKEKFQIPPNAEL
          LEG..KD.LFDQR.LRFE...GENLDLPY.LER.IQ..EKGEHS.VYLKPSYAFGSVGKEKFQIPPNAEL
Retrocopy LEGCCKDQLFDQRALRFEVSDGENLDLPYDLERAIQHLEKGEHSTVYLKPSYAFGSVGKEKFQIPPNAEL

Parental  KYELHLKSFEKAKESWEMNSEEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQK
          KYELHLKSFEKAKESWEM.SEEK.EQ.TIVKE.G.VYF..GKYKQALLQ.KKIVSWLEYESSFSNEEAQK
Retrocopy KYELHLKSFEKAKESWEMISEEKPEQNTIVKEQGSVYFNKGKYKQALLQCKKIVSWLEYESSFSNEEAQK

Parental  AQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLFRRGEAHLAVNDFELARADFQKVLQLY
          AQALRLASHL.LAMC.LKLQAFSAAIESCN.ALELDSNNEKG.FRRGEAHLAVNDFELA.ADFQKVLQLY
Retrocopy AQALRLASHLDLAMCQLKLQAFSAAIESCNRALELDSNNEKGPFRRGEAHLAVNDFELAWADFQKVLQLY

Parental  PNNKAAKTQLAVCQQRIRRQLAREKKLYANMFERLAEEENKAKAEASSGDHPTDTEMKEEQKSNTAGSQS
          PNNKAA..QLAVCQQRI.RQLAR.KK.YA.MFERLAEEENKAKAEA.SGDHPTDTEMK.E.KSNTAGS.S
Retrocopy PNNKAARAQLAVCQQRIHRQLAR-KKFYAKMFERLAEEENKAKAEACSGDHPTDTEMKVEWKSNTAGS*S

Parental  QVETEA
          QVETEA
Retrocopy QVETEA

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	0.00 RPM	119.15 RPM
SRP007412_liver	0.00 RPM	74.86 RPM
SRP007412_testis	0.00 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_2854 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2854 has 0 orthologous retrocopies within eutheria group .

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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,