RetrogeneDB ID: retro_ptro_1884

Retrocopy location

• Organism: Chimpanzee (Pan troglodytes)
• Coordinates: 3:45232118..45233984(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MPRIP
• Ensembl ID: ENSPTRG00000008824
• Aliases: None
• Description: None

Sequence

>retro_ptro_1884
CCCAGTGCTGAGAAAGTCCCCACCACCAAGTCCACACTGTGGCAGGAAGAAATGAGGACCAAGGACCAGCCAGATGGCAG
CAGCCTGAGTCCAGCTCAGAGTCCCAGCCAGAGCCAGCCTCCTGCTGCCAGCTCCCTGCGGGAACCTGGGCTGGAGAGCA
AAGAAGAGGAGAGCACCATGAGTAGCGACCGCATGGACTGTGGCCGCAAAGTCCGGGTGGAGAGTGGCTACTTCTCTCTG
GAGAAGACCAAACAGGACTTAAAGGCCGAAGAACAGCAGCTGCCCCAGCCGCTCTCCCCTCCCAGCCCCAGCACCCCCAA
CCACAGGAGGTCCCAGGTGATTGAAAAGTTTGAGGCCTTGGACATTGAGAAGGCAGAGCACATGGAGACCAATGCAGTGG
GGCCCTCACCATCCAGCGACACACGCCAGGGCCGCAGCGAGAAAAGGGCGTTCCCTAGGAAGCGGGACTTCACCAATGAA
GCCCCCCCCCCCCCAGCTCCTCTCCCAGACGCCTCGGCTTCCCCCCTGTCTCCACACCGAAGAGCCAAGTCACTGGACAG
GAGGTCCACGGAGCCCTCCGTGACGCCCGACCTGCTGAATTTCAAGAAAGGCTGGCTGACTAAGCAGTATGAGGACGGCC
AATGGAAGAAACACTGGTTTGTCCTCGCCGATCAAAGCCTGAGATACTACAGGGATTCAGTGGCTGAGGAGGCAGCCGAC
TTGGATGGAGAAATTGACTTGTCTGCATGTTACCATGTCACAGAGTATCCAGTTCAGAGAAACTATGGCTTCCAGATACA
TACAAAGGAGGGCGAGTTTACCCTGTCGGCCATGACATCTGGGATTCGGCGGAACTGGATCCAGACCATCATGAAGCACG
TGCACCCGACCACTGCCCCGGATGTGACCAGCTCGTTGCCAGAGGAAAAAAACAAGAGCAGCTGCTCTTTTGAGACCTGC
CCAAGGCCTACTGAGAAGCAAGAGGCAGAGCCGGGGGATCCGGACCCTGAGCAGAAGAGGAGCCGCACGCGGGAGCGGAG
GCGAGAGGGCCGCTCCAAGACCTTTGACTGGGCTGAGTTCCGTCCCATCCAGCAGGCCCTGGCTCAGGAGCGGGTGGGCG
GCGTGGGGCCTGCTGACACCCACGAGCCCCTGCGCCCTGAGGCGGAGCCTGGGGAGCTGGAGCAGGAGCGTGTACGGAGG
CGGGAGGAGCACCGCAAGCACTTCGGGATGCTCGACGCCACAGACGGGCCAGGCACTGAGGATGCAGCCCTGCGCATGGA
GGTGGACCGGAGCCCAGGGCTGCCTGTGAGCGACCTCAAGACGCATAACGTCCACGTGGAGATCAAGCAGCGGTGGCATC
AGGTGGAGACCACGCCTCTCCGGGAAGAGAAGCAGGTGCCCATCGCCCCCATCCACCTGTCTTCTGAAGATGGGGGTGAC
CGGCTCTCCACACACGAGCTGACCTCTCTGCTCGAGAAGGAGCTGGAGCAGAGCCAGAAGGAGGCCTCAGACCTTCTGGA
GCAGAACCACCTCCTGCAGGACCAGCTGAGGGTGGCCCTGGGCTGGAAGCAGAGCACCCGTGAGGGCTACGTGCTGCAGG
CCACGTGCAAGCGAGGGTTTGCAGCAATGGAAGAAACGCACCAGAAGAAGATTGAAGATCTCCAGAGGCAGCACCAGCGG
GAGCTAGAGAAACTTCGAGAAGAGAAAGACCGCCTCCTAGCCGAGGAGACAGCAGCCACCATCTCAGCCATTGAAGCCAT
GAAGAACGCCCACCGGGAGGAGATGGAGCGGGAGCTGGAGAAGGGCCAGCGGTCCCAGATCAGCAGCGTCAACTCGGATA
ATGGGGCCCTGCGGCGCCAGTACCTG

Alignment

ORF - retro_ptro_1884 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.98 %
• Parental protein coverage: 59.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PSAEKVPTTKSTLWQEEMRTKDQPDGSSLSPAQSPSQSQPPAASSLREPGLESKEEESAMSSDRMDCGRK
          PSAEKVPTTKSTLWQEEMRTKDQPDGSSLSPAQSPSQSQPPAASSLREPGLESKEEES.MSSDRMDCGRK
Retrocopy PSAEKVPTTKSTLWQEEMRTKDQPDGSSLSPAQSPSQSQPPAASSLREPGLESKEEESTMSSDRMDCGRK

Parental  VRVESGYFSLEKTKQDLKAEEQQLPPPLSPPSPSTPNHRRSQVIEKFEALDIEKAEHMETNAVGPSPSSD
          VRVESGYFSLEKTKQDLKAEEQQLP.PLSPPSPSTPNHRRSQVIEKFEALDIEKAEHMETNAVGPSPSSD
Retrocopy VRVESGYFSLEKTKQDLKAEEQQLPQPLSPPSPSTPNHRRSQVIEKFEALDIEKAEHMETNAVGPSPSSD

Parental  TRQGRSEKRAFPRKRDFTNEAPP--APLPDASASPLSPHRRAKSLDRRSTEPSVTPDLLNFKKGWLTKQY
          TRQGRSEKRAFPRKRDFTNE.....APLPDASASPLSPHRRAKSLDRRSTEPSVTPDLLNFKKGWLTKQY
Retrocopy TRQGRSEKRAFPRKRDFTNEXXXXXAPLPDASASPLSPHRRAKSLDRRSTEPSVTPDLLNFKKGWLTKQY

Parental  EDGQWKKHWFVLADQSLRYYRDSVAEEAADLDGEIDLSACYDVTEYPVQRNYGFQIHTKEGEFTLSAMTS
          EDGQWKKHWFVLADQSLRYYRDSVAEEAADLDGEIDLSACY.VTEYPVQRNYGFQIHTKEGEFTLSAMTS
Retrocopy EDGQWKKHWFVLADQSLRYYRDSVAEEAADLDGEIDLSACYHVTEYPVQRNYGFQIHTKEGEFTLSAMTS

Parental  GIRRNWIQTIMKHVHPTTAPDVTSSLPEEKNKSSCSFETCPRPTEKQEAELGEPDPEQKRSRARERRREG
          GIRRNWIQTIMKHVHPTTAPDVTSSLPEEKNKSSCSFETCPRPTEKQEAE.G.PDPEQKRSR.RERRREG
Retrocopy GIRRNWIQTIMKHVHPTTAPDVTSSLPEEKNKSSCSFETCPRPTEKQEAEPGDPDPEQKRSRTRERRREG

Parental  RSKTFDWAEFRPIQQALAQERVGGVGPADTHEPLRPEAEPGELERERARRREERRKRFGMLDATDGPGTE
          RSKTFDWAEFRPIQQALAQERVGGVGPADTHEPLRPEAEPGELE.ER.RRREE.RK.FGMLDATDGPGTE
Retrocopy RSKTFDWAEFRPIQQALAQERVGGVGPADTHEPLRPEAEPGELEQERVRRREEHRKHFGMLDATDGPGTE

Parental  DAALRMEVDRSPGLPVSDLKTHNVHVEIEQRWHQVETTPLREEKQVPIAPVHLSSEDGGDRLSTHELTSL
          DAALRMEVDRSPGLPVSDLKTHNVHVEI.QRWHQVETTPLREEKQVPIAP.HLSSEDGGDRLSTHELTSL
Retrocopy DAALRMEVDRSPGLPVSDLKTHNVHVEIKQRWHQVETTPLREEKQVPIAPIHLSSEDGGDRLSTHELTSL

Parental  LEKELEQSQKEASDLLEQNRLLQDQLRVALGREQSAREGYVLQATCERGFAAMEETHQKKIEDLQRQHQR
          LEKELEQSQKEASDLLEQN.LLQDQLRVALG..QS.REGYVLQATC.RGFAAMEETHQKKIEDLQRQHQR
Retrocopy LEKELEQSQKEASDLLEQNHLLQDQLRVALGWKQSTREGYVLQATCKRGFAAMEETHQKKIEDLQRQHQR

Parental  ELEKLREEKDRLLAEETAATISAIEAMKNAHREEMERELEKSQRSQISSVNSDVEALRRQYL
          ELEKLREEKDRLLAEETAATISAIEAMKNAHREEMERELEK.QRSQISSVNSD..ALRRQYL
Retrocopy ELEKLREEKDRLLAEETAATISAIEAMKNAHREEMERELEKGQRSQISSVNSDNGALRRQYL

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	0.77 RPM	120.58 RPM
SRP007412_cerebellum	0.22 RPM	109.19 RPM
SRP007412_heart	0.17 RPM	67.39 RPM
SRP007412_kidney	0.18 RPM	70.92 RPM
SRP007412_liver	0.10 RPM	54.80 RPM
SRP007412_testis	0.21 RPM	31.40 RPM

ChIP-Seq

Pan troglodytes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ptro_1884 retrocopy.

TSS

Pan troglodytes was not studied using FANTOM5 data.

Lab

retro_ptro_1884 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ptro_1884 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2783

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000133030	1 retrocopy	retro_hsap_2783,
Pan troglodytes	ENSPTRG00000008824	1 retrocopy	retro_ptro_1884 ,