RetrogeneDB ID: retro_nleu_797

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397273.1:40624687..40625843(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CHAF1B
• Ensembl ID: ENSNLEG00000004429
• Aliases: None
• Description: None

Sequence

>retro_nleu_797
TATAAAAGTTATGTCCAAGGAGTAAACTGGGACCCTTTAGGTCAATATGTTGCTACTCTGAGCTGTGACAGGGTGCTGCA
GATATACAGTATACAGAAGAAGCGTGTGGTTTTTAATGTTTCGAAGATGCTATCTGGAATAGGGGCTGAAGGAGAGGTGA
GAAGCTACTGGATGTTTCACGATGATAGCATGAAGTTGTTCTTCAGTAGACTGAGTTTCACTCCTGATGGATCTTTGCTC
CTCACACCAGCTGGATGTGTGGAATCCAGTGAAAATGTAATGAACACCACTTACGTTTTCTCCAGGAAGAATCTTAAAAG
GCCCATCGCTCATCTTTCATGTCCTGGAAAAGCCACTCTTGCTGTTGGCAGCTGTCCAGTCTACTTTGAACTGAGGCCGG
TGGTGGAAACAGGTATGGAGGTAATGAGTCTGCCCTACCGCCTGGTATTTGCTGTGGACTCTGTGCTTCTGGACACCCAG
GAATCCTTCCCTTTCGGTTATGTGTCTAATACACATTACCACACCCTCAGTGACATTTCATGGTCTAGCGATGGCGCCTT
CATGGCCATTTCTTCCACAGACAGTTACTGCTCGTTTGTGACATTTGAGAAAGGTGAACTTGGAATACTTTTAAAACAGA
AGTCAGTTTTGAGCACGACAACTCCTGATACAGCAAAGAAAACCAAGAGTCAGACACACTGAGGGTCTTTGCCAGGACCC
GGACCAGTAGAGGGGACAACTCCCGGCAGAACCCAAGACCCCAGCAACCCCTGCTTGACTCCCACTCAGGCCAGACAGGC
CCCAGCCCCAACAGCCATCAGGGACCCTCCCTCTATCATTCTGCCATCAAAAGCTCCTTGCCGAGGCCTTCAGAGAAGAA
GACCCTGCCACCCAGTAGTTAAAACACAAAAGCCCATCCATCCCGGAGGGTCACTCTGAACACATTGCAATCCTGGAGCA
AGACAACACCCCGGAGAATAAACTTAATACCCTTAAAGACAGACACTCCACCAAAGTCTGTACCAATCAATGTAATTTCC
ACCCCTTCTGCAGAAGAATTTAGTAGGAGATGCCTGGAAACACTCAGGGCAGTCCTGCAGAGCTAAAACAGCCCAGACTC
AATGAAAACAAAGGGGGCACTGAAAGTCTGGAACCT

Alignment

ORF - retro_nleu_797 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.16 %
• Parental protein coverage: 69.77 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  HKSYVQGVTWDPLGQYVATLSCDRVLRVYSIQKKRVAFNVSKMLSGIGAEGEARSYRMFHDDSMKSFFRR
          .KSYVQGV.WDPLGQYVATLSCDRVL..YSIQKKRV.FNVSKMLSGIGAEGE.RSY.MFHDDSMK.FF.R
Retrocopy YKSYVQGVNWDPLGQYVATLSCDRVLQIYSIQKKRVVFNVSKMLSGIGAEGEVRSYWMFHDDSMKLFFSR

Parental  LSFTPDGSLLLTPAGCVESGENVMNTTYVFSRKNLRRPIAHLPCPGKATLAVRCCPVYFELRPVVETGVE
          LSFTPDGSLLLTPAGCVES.ENVMNTTYVFSRKNL.RPIAHL.CPGKATLAV..CPVYFELRPVVETG.E
Retrocopy LSFTPDGSLLLTPAGCVESSENVMNTTYVFSRKNLKRPIAHLSCPGKATLAVGSCPVYFELRPVVETGME

Parental  LMSLPYRLVFAVASEDSVLLYDTQQSFPFGYVSNIHYHTLSDISWSSDGAFLAISSTDGYCSFVTFEKDE
          .MSLPYRLVFAV...DSVLL.DTQ.SFPFGYVSN.HYHTLSDISWSSDGAF.AISSTD.YCSFVTFEK.E
Retrocopy VMSLPYRLVFAV---DSVLL-DTQESFPFGYVSNTHYHTLSDISWSSDGAFMAISSTDSYCSFVTFEKGE

Parental  LGIPLKEKPVLSMRTPDTAKKTKSQTHRGSSPGPRPVEGTPASRTQDPSSPGTTPPQARQAPAPAAIRDP
          LGI.LK.K.VLS..TPDTAKKTKSQTH.GS.PGP.PVEGT...RTQDPS.P..TP.QARQAPAP.AIRDP
Retrocopy LGILLKQKSVLSTTTPDTAKKTKSQTH*GSLPGPGPVEGTTPGRTQDPSNPCLTPTQARQAPAPTAIRDP

Parental  PSI-SPAVKSPLPGPSEEKTLQPSSQNTKAHPSRRVTLNTLQAWSKTTPRRINLTPLKTDTPPSSVPTSV
          PSI...A.KS.LP.PSE.KTL.PSS.NTKAHPSRRVTLNTLQ.WSKTTPRRINL.PLKTDTPP.SVP..V
Retrocopy PSI<HSAIKSSLPRPSEKKTLPPSS*NTKAHPSRRVTLNTLQSWSKTTPRRINLIPLKTDTPPKSVPINV

Parental  ISTPSTEEIQS-EMPGDAQGSPPELKRPRLDENKGGTESLDP
          ISTPS.EE....EMPG..QGSP.ELK.PRL.ENKGGTESL.P
Retrocopy ISTPSAEEFSR<EMPGNTQGSPAELKQPRLNENKGGTESLEP

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_797 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000159259	1 retrocopy	retro_hsap_3504,
Gorilla gorilla	ENSGGOG00000015726	1 retrocopy	retro_ggor_2369,
Nomascus leucogenys	ENSNLEG00000004429	1 retrocopy	retro_nleu_797 ,
Pongo abelii	ENSPPYG00000011403	1 retrocopy	retro_pabe_2898,
Pan troglodytes	ENSPTRG00000013891	1 retrocopy	retro_ptro_2375,