RetrogeneDB ID: retro_ptro_114

Retrocopy location

• Organism: Chimpanzee (Pan troglodytes)
• Coordinates: 10:37028293..37029712(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSPTRG00000041649
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: NAMPT
• Ensembl ID: ENSPTRG00000019571
• Aliases: None
• Description: Nicotinamide phosphoribosyltransferase [Source:UniProtKB/TrEMBL;Acc:K7BN66]

Sequence

>retro_ptro_114
GTTATTCACTATAAACAATATCCACCCAACACAAGCAAAGTTTATTCCTACTTTGAATGCCGTGAAAAGAAGACAGAAAA
CTCCAAATTAAGGAAGGTGAAATATGAGGAAACAGTATTTTATGGGTTGCAGTACATTCTTAATAAGTACTTAAAAGGTA
AAGTAGTAACCAAAGAGAAAATCCAGGAAGCCAAAGATGTCTACAAAGAACATTTCCAAGATGATGTCGTTAATGAAAAG
GGATGGAACGACATTCTTGAGAAATATGATGGGCATCTTCCAATAGAAATAAAAGCTGTTCCTGAGGGCTTTGTCATTCC
CAGAGGAAATGTTCTCTTCACGGTGGAAAACACAGATCCAGAGTGTTACTGGCTTACAAATTGGATTGAGACTATTCTTG
TTCAGTCCTGGTATCCAATCACAGTGGCCACAAATTCTAGAGAGCAGAAGAAAATATTGGCCAAATATTTGTTAGAAACT
TCTGGTAACTTAGATGGTCTGGAATACAAGTTACATGATTTTGGCTACAGAGGAGTCTCTTCCCAAGAGACTGCTGGCAT
AGGAGCATCTGCTCATTTGGTTAACTTCAAAGGAACGGATACAGTAGCAGGACTTGCTCTAATTAAAAAATATTATGGAA
CGAAAGATCCTGTTCCAGGCTATTCTGTTCCAGCAGCAGAACACAGTACCGTAACAGCTTGGGGGAAAGACCATGAAAAA
GATGCTTTTGAACATATTGTAACACAGTTTTCATCAATGCCTGTATCTGTGGTCAGCGATAGCTATGACATTTATAATAC
GTGTGAGAAAATATGGGGTGAAGATCTAAGACATTTAATAGTATCGAGAAGTACACAGGCACCACTAATAATCAGACCTG
ATTCTGGAAACCCTCTTGACACTGTGTTAAAGGTTTTGGAGATTTTAGGTAAGAAGTTTCCTGTTACTGAGAACTCAAAG
GGTTACAAGTTGCTGCCACCTTATCTTAGAGTTATTCAAGGGGATGGAGTAGATATTAATACCTTACAAGAGATTGTAGA
AGGCATGAAACAAAAAATGTGGAGTATTGAAAATATTGCCTTCGGTTCTGGTGGAGGTTTGCTACAGAAGTTAACAAGAG
ATCTCTTGAATTGTTCCTTCAAGTGTAGCTATGTTGTAACTAATGGCCTTGGGATTAACCTCTTCAAGGACCCGGTTGCT
GATCCCAACAAAAGGTCCAAAAAGGGCCGATTATCTTTACATAGGACGCCAGCAGGGAATTTTGTTACACTGGAGGAAGG
AAAAGGAGACCTTGAGGAATATGGTCAGGATCTTCTCCATACTGTCTTCAAGAATGGCAGGGTGACAAAAAGCTATTCAT
TTGATGAAATAAGAAAAAATGCACAGCTGAATATTGAACTGGAAGCAGCACATCATTAG

Alignment

ORF - retro_ptro_114 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.09 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VTHYKQYPPNTSKVYSYFECREKKTENSKLRKVKYEETVFYGLQYILNKYLKGKVVTKEKIQEAKDIYKE
          V.HYKQYPPNTSKVYSYFECREKKTENSKLRKVKYEETVFYGLQYILNKYLKGKVVTKEKIQEAKD.YKE
Retrocopy VIHYKQYPPNTSKVYSYFECREKKTENSKLRKVKYEETVFYGLQYILNKYLKGKVVTKEKIQEAKDVYKE

Parental  HFQDDVFNEKGWNYILEKYDGHLPIEIKAVPEGFVIPRGNVLFTVENTDPECYWLTNWIETILVQSWYPI
          HFQDDV.NEKGWN.ILEKYDGHLPIEIKAVPEGFVIPRGNVLFTVENTDPECYWLTNWIETILVQSWYPI
Retrocopy HFQDDVVNEKGWNDILEKYDGHLPIEIKAVPEGFVIPRGNVLFTVENTDPECYWLTNWIETILVQSWYPI

Parental  TVATNSREQKKILAKYLLETSGNLDGLEYKLHDFGYRGVSSQETAGIGASAHLVNFKGTDTVAGLALIKK
          TVATNSREQKKILAKYLLETSGNLDGLEYKLHDFGYRGVSSQETAGIGASAHLVNFKGTDTVAGLALIKK
Retrocopy TVATNSREQKKILAKYLLETSGNLDGLEYKLHDFGYRGVSSQETAGIGASAHLVNFKGTDTVAGLALIKK

Parental  YYGTKDPVPGYSVPAAEHSTITAWGKDHEKDAFEHIVTQFSSVPVSVVSDSYDIYNACEKIWGEDLRHLI
          YYGTKDPVPGYSVPAAEHST.TAWGKDHEKDAFEHIVTQFSS.PVSVVSDSYDIYN.CEKIWGEDLRHLI
Retrocopy YYGTKDPVPGYSVPAAEHSTVTAWGKDHEKDAFEHIVTQFSSMPVSVVSDSYDIYNTCEKIWGEDLRHLI

Parental  VSRSTQAPLIIRPDSGNPLDTVLKVLEILGKKFPVTENSKGYKLLPPYLRVIQGDGVDINTLQEIVEGMK
          VSRSTQAPLIIRPDSGNPLDTVLKVLEILGKKFPVTENSKGYKLLPPYLRVIQGDGVDINTLQEIVEGMK
Retrocopy VSRSTQAPLIIRPDSGNPLDTVLKVLEILGKKFPVTENSKGYKLLPPYLRVIQGDGVDINTLQEIVEGMK

Parental  QKMWSIENIAFGSGGGLLQKLTRDLLNCSFKCSYVVTNGLGINVFKDPVADPNKRSKKGRLSLHRTPAGN
          QKMWSIENIAFGSGGGLLQKLTRDLLNCSFKCSYVVTNGLGIN.FKDPVADPNKRSKKGRLSLHRTPAGN
Retrocopy QKMWSIENIAFGSGGGLLQKLTRDLLNCSFKCSYVVTNGLGINLFKDPVADPNKRSKKGRLSLHRTPAGN

Parental  FVTLEEGKGDLEEYGQDLLHTVFKNGKVTKSYSFDEIRKNAQLNIELEAAHH
          FVTLEEGKGDLEEYGQDLLHTVFKNG.VTKSYSFDEIRKNAQLNIELEAAHH
Retrocopy FVTLEEGKGDLEEYGQDLLHTVFKNGRVTKSYSFDEIRKNAQLNIELEAAHH

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	0.09 RPM	8.47 RPM
SRP007412_cerebellum	0.29 RPM	13.16 RPM
SRP007412_heart	2.33 RPM	108.57 RPM
SRP007412_kidney	0.55 RPM	26.18 RPM
SRP007412_liver	3.57 RPM	187.24 RPM
SRP007412_testis	0.95 RPM	7.38 RPM

ChIP-Seq

Pan troglodytes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ptro_114 retrocopy.

TSS

Pan troglodytes was not studied using FANTOM5 data.

Lab

retro_ptro_114 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ptro_114 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_79

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000016193	2 retrocopies	retro_cjac_1281, retro_cjac_3877,
Cavia porcellus	ENSCPOG00000009226	1 retrocopy	retro_cpor_848,
Homo sapiens	ENSG00000105835	1 retrocopy	retro_hsap_79,
Oryctolagus cuniculus	ENSOCUG00000013417	1 retrocopy	retro_ocun_777,
Pongo abelii	ENSPPYG00000018270	2 retrocopies	retro_pabe_1407, retro_pabe_1415,
Pan troglodytes	ENSPTRG00000019571	1 retrocopy	retro_ptro_114 ,
Takifugu rubripes	ENSTRUG00000016695	1 retrocopy	retro_trub_33,