RetrogeneDB ID: retro_ptro_103

Retrocopy location

• Organism: Chimpanzee (Pan troglodytes)
• Coordinates: 8:38915508..38920137(+)
• Located in intron of: ENSPTRG00000020206

Retrocopy information

• Ensembl ID: ENSPTRG00000039184
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSPTRG00000020906
• Aliases: None
• Description: None

Sequence

>retro_ptro_103
TTCACCAGTGAGATTAGTCGCCTGGACCTGGGTCTAAGTGTGGAGGTATGGAACAAAGGACTGATCTGGGACACCATGGT
GGGGACTGTGTGGATTGCGCTGAAGACTATTCGTCAGTCGGATGAGGAAGGGCCTGGGGAATGGTCCACATTAGAGGCAG
AGACGTTAATGAAAGACGATGAGATCTGTGGAACTAGAAACCCAACTCCTCATAAAATTTTGCTTGATACAAGATTTGAG
TTGCCTTTTGATATCCCAGAGGAGGAAGCCAGATATTGGACCTACAAATGGGAGCAAATCAATGCCTTGGGAGCTGACAA
TGAGTATTCTAGTCAAGAAGAAAGCCAGAGGAAGCCATTGCCCACTGCTGCCGCCCAGTGTTCTTTTGAAGACCCTGATA
GTGCTGTCGATGACCGAGATAGTGACTATCGCAGTGAGACCAGCAACAGCTTCCCACCTCCTTACCATACAGCTTCCCAG
CCCAACGCTTCTGTGCACCAGTTCCCTGTGCCGGTGCGATCGCCACAGCAGCTGCTACTTCAAGGCAGTTCCCGGGACTC
TTGTAATGACTCTATGCAAAGTTATGACCTTGATTATCCAGAGCGGCGGGCTATCAGCCCCACCAGCAGCAGTAGGTATG
GCTCCTCCTGTAATGTGAGTCAAGGAAGCTCTCAGCTAAGTGAACTAGACCAGTATCACGAACAAGATGACGACCATCGG
GAGACAGACTCGATTCATTCTTGCCACAGCTCTCACAGCCTGTCCAGAGATGGCCAAGCAGGTTTTGGAGAACAAGAGAA
ACCCTTGGAGGTGACAGGTCAAGCAGAGAAGGAGGCAGCATGTGAACCCAAGGAGATGAAAGAAGATGCCACAACCCACC
CTCCCCCAGATCTGGTGCTGCAAAAAGACCACTTCCTAGGTCCCCAGGAGAGTTTTCCTGAGGAGAATGCATCTTCACCA
TTTACCCAAGCCAGAGCACATTGGATCCGAGCAGTTACCAAGGTTCGACTCCAGCTGCAGGAGATTCCAGATGATGGTGA
CCCCTCTCTGCCTCAGTGGCTCCCGGAAGGGCCAGCCGGAGGGCTCTATGGCATTGACAGCATGCCAGATTTACGCAGAA
AGAAGCCACTGCCACTTGTCAGTGATCTGTCACTGGTCCAGTCTCGGAAGGCAGGAATCACTTCTGCAATGGCTACACGC
ACTTCTCTTAAGGACGAAGAGCTGAAATCCCACGTGTATAAGAAAACCCTGCAGGCCTTAATCTACCCCATTTCGTGCAC
CACTCCTCATAACTTTGAGGTCTGGACGGCCACTACCCCAACCTACTGCTATGAGTGTGAAGGCCTGCTCTGGGGCATTG
CCCGGCAGGGCATGCGCTGCAGCGAATGTGGAGTCAAGTGCCATGAGAAGTGCCAGGATCTGCTCAATGCTGACTGCCTG
CAGCGGGCTGCAGAAAAGAGCTGTAAACATGGAGCTGAGGACCGGACCCAGAACATTATCATGGCCATGAAGGACCGCAT
GAAGATCCGAGAGCGAAATAAGCCAGAGATCTTTGAAGTTATCCGGGACGTCTTCACAGTGAACAAAGCTGCCCATGTGC
AGCAGATGAAAACAGTGAAGCAGAGTGTACTGGATGGCACCTCCAAATGGTCAGCCAAGATCACCATTACTGTGGTGTGT
GCCCAGGGCCTACAAGCCAAGGACAAAACAGGATCCAGTGACCCTTACGTGACTGTGCAAGTCAGCAAAACTAAGAAGCG
TACCAAGACCATTTTTGGAAACTTGAATCCTGTTTGGGAGGAGAAGTTCCATTTTGAGTGCCACAACTCCTCTGACCGCA
TTAAGGTGCGTGTATGGGATGAGGATGATGACATCAAGTCAAGAGTAAAGCAACGCCTAAAGCGAGAGTCTGATGATTTC
CTTGGCCAAACCATCATTGAGGTTCGGACCCTAAGTGGCGAGATGGACGTCTGGTACAACTTGGAGAAGAGGACAGACAA
ATCAGCCGTCTCAGGGGCTATCCGACTACAAATCAGTGTGGAGATCAAGGGGGAGGAGAAGGTAGCCCCATACCACGTGC
AGTATACGTGTCTCCATGAGAATCTTTTCCATTACCTCACAGACATTCAGGGCAGTGGAGGAGTCCGCATCCCTGAAGCT
CGAGGAGACGATGCCTGGAAGGTGTACTTTGATGAGACAGCCCAAGAAATTGTGGATGAATTTGCCATGCGTTATGGCAT
TGAGTCCATATATCAGGCCATGACGCACTTTGCATGTTTATCATCCAAGTACATGTGTCCTGGTGTGCCAGCAGTGATGA
GCACCTTACTGGCCAACATCAATGCCTACTATGCCCACACAACTGCCTCTACCAATGTCTCTGCATCTGATCGCTTTGCA
GCCTCCAACTTTGGGAAAGAGAGATTTGTAAAACTGCTGGACCAGCTACACAACTCACTGAGGATCGACCTCTCTACATA
CAGGAATAATTTCCCTGCTGGGAGTCCTGAACGGCTTCAGGACTTAAAATCCACAGTGGATTTGCTGACCAGCATTACTT
TCTTCAGAATGAAGGTACAAGAACTGCAAAGCCCTCCAAGAGCCAGCCAGGTGGTAAAGGATTGTGTGAAGGCCTGTTTG
AACTCCACATATGAATATATCTTCAACAACTGCCACGACTTATACAGCCGCCAGTACCAGCTGAAGCAGGAGCTACCTCC
AGAGGAACAAGGGCCCAGCATTCGGAACCTGGATTTCTGGCCCAAGCTCATCACACTCATCGTGTCAATCATAGAGGAAG
ATAAGAATTCCTACACACCTGTTCTGAACCAGTTTCCTCAGGAGTTGAATGTGGGAAAAGTCAGCGCAGAAGTGATGTGG
CATTTGTTTGCCCAAGACATGAAATATGCATTGGAGGAGCATGAGAAAGACCATCTGTGTAAAAGTGCTGACTACATGAA
CCTGCACTTCAAGGTGAAGTGGCTCCACAATGAATACGTGCGGGATCTGCCTGTCCTCCAGGGGCAGGTGCCTGAGTACC
CAGCGTGGTTTGAACAGTTCGTGCTACAATGGCTGGATGAGAATGAGGATGTATCCCTGGAATTCCTGCGTGGGGCCCTG
GAACGAGATAAGAAGGATGGATTCCAGCAGACATCAGAGCATGCACTCTTTTCCTGCTCTGTGGTGGATGTCTTCACACA
ACTCAATCAGAGCTTTGAGATCATCCGGAAGCTGGAATGCCCAGACCCCAGCATCCTTGCCCACTACATGAGGAGGTTTG
CTAAGACCATCGGGAAAGTGCTGATGCAGTATGCAGACATCTTGTCAAAGGACTTCCCAGCCTATTGCACAAAGGAGAAA
CTGCCCTGCATCCTGATGAACAACATGCAGCAACTGAGGGTCCAGCTGGAGAAAATGTTTGAGGCCATGGGAGGCAAGGA
GCTGGACCTTGAAGCTGCAGACAGTCTGAAGGAGCTGCAGGTGAAACTGAATACGGTTCTGGATGAGCTCAGCATGGTGT
TTGGAAACAGTTTCCAGGTACGGATTGATGAGAGTGTTCGACAAATGGCCGACATCCTGGGCCAGGTTCGGGGCACAGGG
AATGCATCTCCAGACGCCAGGGCCTCAGCGGCTCAGGATGCAGATAGCGTACTCCGGCCTCTCATGGACTTCCTGGATGG
CAACCTCACCCTCTTTGCCACTGTGTGTGAGAAGACGGTTCTGAAGCGTGTACTGAAGGAGCTCTGGCGCGTGGTGATGA
ACACAATGGAGAGGATGATTGTTCTGCCCCCATTCACTGACCAGACGGGCACCCAGCTGATCTTCACTGCTGCCAAGGAG
CTGAGCCATCTTTCCAAACTCAAGGATCACATGGTACGAGAGGAAACACGGAATCTCACTCCAAAGCAGTGTGCAGTCCT
TGACCTCGCCCTGGACACCATCAAGCAATACTTCCATGCAGGAGGCAATGGGCTGAAGAAAACCTTCCTGGAGAAGAGCC
CAGATCTGCAGTCTCTACGCTATGCCCTGTCTCTGTACACACAGACTACTGACACTCTCATCAAGACCTTTGTGCGCTCG
CAGACCACCCAAGGGTCTGGTGTGGACGATCCTGTGGGAGAAGTCTCTATTCAGGTGGACTTGTTTACACACCCTGGTAC
TGGGGAGCACAAGGTCACAGTGAAAGTGGTGGCTGCCAATGACCTCAAGTGGCAGACAGCGGGTATGTTCCGGCCTTTCG
TGGAGGTGACTATGGTTGGCCCACACCAAAGTGATAAGAAGAGGAAGTTCACAACCAAATCCAAAAGCAACAACTGGGCC
CCCAAGTACAATGAGACATTCCACTTCCTCCTGGGAAATGAAGAGGGGCCCGAGTCCTATGAGTTGCAGATATGCGTGAA
GGATTACTGCTTTGCCCGGGAAGATCGTGTGCTAGGGCTGGCTGTGATGCCTCTGAGGGATGTCACAGCCAAGGGCAGCT
GTGCCTGCTGGTGCCCCTTGGGCCGGAAGATCCATATGGATGAGACAGGCCTGACCATTCTCCGGATTTTGTCTCAGAGG
AGCAATGACGAGGTGGCCCGAGAATTTGTGAAACTCAAATCAGAGTCTCGTTCCACGGAGGAGGGGAGC

Alignment

ORF - retro_ptro_103 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.6 %
• Parental protein coverage: 76.39 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QQTFEDPDSAVDDRDSDYRSETSNSFPPPYHTASQPNASVHQFPVPVRSPQQLLLQGSSRDSCNDSMQSY
          Q..FEDPDSAVDDRDSDYRSETSNSFPPPYHTASQPNASVHQFPVPVRSPQQLLLQGSSRDSCNDSMQSY
Retrocopy QCSFEDPDSAVDDRDSDYRSETSNSFPPPYHTASQPNASVHQFPVPVRSPQQLLLQGSSRDSCNDSMQSY

Parental  DLDYPERRAISPTSSSRYGSSCNVSQGSSQLSELDQYHEQDDDHRETDSIHSCHSSHSLSRDGQAGFGEQ
          DLDYPERRAISPTSSSRYGSSCNVSQGSSQLSELDQYHEQDDDHRETDSIHSCHSSHSLSRDGQAGFGEQ
Retrocopy DLDYPERRAISPTSSSRYGSSCNVSQGSSQLSELDQYHEQDDDHRETDSIHSCHSSHSLSRDGQAGFGEQ

Parental  EKPLEVTGQAEKEAACEPKEMKEDATTHPPPDLVLQKDHFLGPQESFPEENASSPFTQARAHWIRAVTKV
          EKPLEVTGQAEKEAACEPKEMKEDATTHPPPDLVLQKDHFLGPQESFPEENASSPFTQARAHWIRAVTKV
Retrocopy EKPLEVTGQAEKEAACEPKEMKEDATTHPPPDLVLQKDHFLGPQESFPEENASSPFTQARAHWIRAVTKV

Parental  RLQLQEIPDDGDPSLPQWLPEGPAGGLYGIDSMPDLRRKKPLPLVSDLSLVQSRKAGITSAMATRTSLKD
          RLQLQEIPDDGDPSLPQWLPEGPAGGLYGIDSMPDLRRKKPLPLVSDLSLVQSRKAGITSAMATRTSLKD
Retrocopy RLQLQEIPDDGDPSLPQWLPEGPAGGLYGIDSMPDLRRKKPLPLVSDLSLVQSRKAGITSAMATRTSLKD

Parental  EELKSHVYKKTLQALIYPISCTTPHNFEVWTATTPTYCYECEGLLWGIARQGMRCSECGVKCHEKCQDLL
          EELKSHVYKKTLQALIYPISCTTPHNFEVWTATTPTYCYECEGLLWGIARQGMRCSECGVKCHEKCQDLL
Retrocopy EELKSHVYKKTLQALIYPISCTTPHNFEVWTATTPTYCYECEGLLWGIARQGMRCSECGVKCHEKCQDLL

Parental  NADCLQRAAEKSCKHGAEDRTQNIIMAMKDRMKIRERNKPEIFEVIRDVFTVNKAAHVQQMKTVKQSVLD
          NADCLQRAAEKSCKHGAEDRTQNIIMAMKDRMKIRERNKPEIFEVIRDVFTVNKAAHVQQMKTVKQSVLD
Retrocopy NADCLQRAAEKSCKHGAEDRTQNIIMAMKDRMKIRERNKPEIFEVIRDVFTVNKAAHVQQMKTVKQSVLD

Parental  GTSKWSAKITITVVCAQGLQAKDKTGSSDPYVTVQVSKTKKRTKTIFGNLNPVWEEKFHFECHNSSDRIK
          GTSKWSAKITITVVCAQGLQAKDKTGSSDPYVTVQVSKTKKRTKTIFGNLNPVWEEKFHFECHNSSDRIK
Retrocopy GTSKWSAKITITVVCAQGLQAKDKTGSSDPYVTVQVSKTKKRTKTIFGNLNPVWEEKFHFECHNSSDRIK

Parental  VRVWDEDDDIKSRVKQRLKRESDDFLGQTIIEVRTLSGEMDVWYNLEKRTDKSAVSGAIRLQISVEIKGE
          VRVWDEDDDIKSRVKQRLKRESDDFLGQTIIEVRTLSGEMDVWYNLEKRTDKSAVSGAIRLQISVEIKGE
Retrocopy VRVWDEDDDIKSRVKQRLKRESDDFLGQTIIEVRTLSGEMDVWYNLEKRTDKSAVSGAIRLQISVEIKGE

Parental  EKVAPYHVQYTCLHENLFHYLTDIQGSGGVRIPEARGDDAWKVYFDETAQEIVDEFAMRYGIESIYQAMT
          EKVAPYHVQYTCLHENLFHYLTDIQGSGGVRIPEARGDDAWKVYFDETAQEIVDEFAMRYGIESIYQAMT
Retrocopy EKVAPYHVQYTCLHENLFHYLTDIQGSGGVRIPEARGDDAWKVYFDETAQEIVDEFAMRYGIESIYQAMT

Parental  HFACLSSKYMCPGVPAVMSTLLANINAYYAHTTASTNVSASDRFAASNFGKERFVKLLDQLHNSLRIDLS
          HFACLSSKYMCPGVPAVMSTLLANINAYYAHTTASTNVSASDRFAASNFGKERFVKLLDQLHNSLRIDLS
Retrocopy HFACLSSKYMCPGVPAVMSTLLANINAYYAHTTASTNVSASDRFAASNFGKERFVKLLDQLHNSLRIDLS

Parental  TYRNNFPAGSPERLQDLKSTVDLLTSITFFRMKVQELQSPPRASQVVKDCVKACLNSTYEYIFNNCHDLY
          TYRNNFPAGSPERLQDLKSTVDLLTSITFFRMKVQELQSPPRASQVVKDCVKACLNSTYEYIFNNCHDLY
Retrocopy TYRNNFPAGSPERLQDLKSTVDLLTSITFFRMKVQELQSPPRASQVVKDCVKACLNSTYEYIFNNCHDLY

Parental  SRQYQLKQELPPEEQGPSIRNLDFWPKLITLIVSIIEEDKNSYTPVLNQFPQELNVGKVSAEVMWHLFAQ
          SRQYQLKQELPPEEQGPSIRNLDFWPKLITLIVSIIEEDKNSYTPVLNQFPQELNVGKVSAEVMWHLFAQ
Retrocopy SRQYQLKQELPPEEQGPSIRNLDFWPKLITLIVSIIEEDKNSYTPVLNQFPQELNVGKVSAEVMWHLFAQ

Parental  DMKYALEEHEKAHLCKSADYMNLHFKVKWLHNEYVRDLPVLQGQVPEYPAWFEQFVLQWLDENEDVSLEF
          DMKYALEEHEK.HLCKSADYMNLHFKVKWLHNEYVRDLPVLQGQVPEYPAWFEQFVLQWLDENEDVSLEF
Retrocopy DMKYALEEHEKDHLCKSADYMNLHFKVKWLHNEYVRDLPVLQGQVPEYPAWFEQFVLQWLDENEDVSLEF

Parental  LRGALERDKKDGFQQTSEHALFSCSVVDVFTQLNQSFEIIRKLECPDPSILAHYMRRFAKTIGKVLMQYA
          LRGALERDKKDGFQQTSEHALFSCSVVDVFTQLNQSFEIIRKLECPDPSILAHYMRRFAKTIGKVLMQYA
Retrocopy LRGALERDKKDGFQQTSEHALFSCSVVDVFTQLNQSFEIIRKLECPDPSILAHYMRRFAKTIGKVLMQYA

Parental  DILSKDFPAYCTKEKLPCILMNNMQQLRVQLEKMFEAMGGKELDLEAADSLKELQVKLNTVLDELSMVFG
          DILSKDFPAYCTKEKLPCILMNNMQQLRVQLEKMFEAMGGKELDLEAADSLKELQVKLNTVLDELSMVFG
Retrocopy DILSKDFPAYCTKEKLPCILMNNMQQLRVQLEKMFEAMGGKELDLEAADSLKELQVKLNTVLDELSMVFG

Parental  NSFQVRIDECVRQMADILGQVRGTGNASPDARASAAQDADSVLRPLMDFLDGNLTLFATVCEKTVLKRVL
          NSFQVRIDE.VRQMADILGQVRGTGNASPDARASAAQDADSVLRPLMDFLDGNLTLFATVCEKTVLKRVL
Retrocopy NSFQVRIDESVRQMADILGQVRGTGNASPDARASAAQDADSVLRPLMDFLDGNLTLFATVCEKTVLKRVL

Parental  KELWRVVMNTMERMIVLPPLTDQTGTQLIFTAAKELSHLSKLKDHMVREETRNLTPKQCAVLDLALDTIK
          KELWRVVMNTMERMIVLPP.TDQTGTQLIFTAAKELSHLSKLKDHMVREETRNLTPKQCAVLDLALDTIK
Retrocopy KELWRVVMNTMERMIVLPPFTDQTGTQLIFTAAKELSHLSKLKDHMVREETRNLTPKQCAVLDLALDTIK

Parental  QYFHAGGNGLKKTFLEKSPDLQSLRYALSLYTQTTDTLIKTFVRSQTTQ
          QYFHAGGNGLKKTFLEKSPDLQSLRYALSLYTQTTDTLIKTFVRSQTTQ
Retrocopy QYFHAGGNGLKKTFLEKSPDLQSLRYALSLYTQTTDTLIKTFVRSQTTQ

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	1.38 RPM	27.08 RPM
SRP007412_cerebellum	0.22 RPM	5.31 RPM
SRP007412_heart	0.26 RPM	4.11 RPM
SRP007412_kidney	2.22 RPM	27.67 RPM
SRP007412_liver	0.92 RPM	5.76 RPM
SRP007412_testis	2.00 RPM	37.62 RPM

ChIP-Seq

Pan troglodytes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ptro_103 retrocopy.

TSS

Pan troglodytes was not studied using FANTOM5 data.

Lab

retro_ptro_103 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ptro_103 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Pan troglodytes	ENSPTRG00000020906	1 retrocopy	retro_ptro_103 ,