RetrogeneDB ID: retro_nleu_2111

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397329.1:3365865..3367182(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000000717
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SEPT10
• Ensembl ID: ENSNLEG00000001328
• Aliases: None
• Description: None

Sequence

>retro_nleu_2111
CTCTTTCAGTCTCACATGGCAACGAAAACAACTTGTATGTCTTCACAAGGATCAGATGATGAACAGAGGAAAAGAGAAAA
CATTCGTTCGTTGACTATGTCTGGCCGTGTTGGTTTTGAGAGTTTGCCTGATCAGCTGGTGAACAGATCCATTCAGCAAG
GTTTCTGCTTTAATATTCTCTGTGTGGGGGAAACTGGAATTGGAAAATCAACACTGATTGACACATTGTTTAATACTAAT
TTTGAAGACTATGGATCCTCACATTTTTGCCCAAATGTTAAACTTAAAGCTCAGACATACGAACTCCAGGAAAGTAATGT
TCAATTGAAATTGACCATTGTGAATACAGTGGGATTTGGTGACCAAATAAATAAAGAAGAGAGCTACCAACCGATAGTTG
ACTACATAGATGATCAGTTTGAGGCCTATTTCCAAGAAGAACTGAAGATTAAGCGTTCTCTCTTTACCTACCATGATTCT
CGCATCCATGTGTGCCTCTACTTCATCTCACCGACAGGCCACTCTCTGAAGACACTTGATCTCTTAACCGTGAAGAACCT
TGACAGCAAGGTAAACATTATACCAGTGATTGCCAAAGCAGATACGGTTTCTAAAACTGAATTACAGAAGTTTAAGATCA
AGTTCATGAGTGAATTGGTCAGCAATGGCGTCCAGATATACCAGTCCCCAACGGATGATGACACTATTGCTAAGGTCAAC
GCTGCAATGAATGGACAGTTGCCGTTTGCTGTTGTGGGAAGTACGGATGAGGTAAAAGTCGGAAACGAGATGGTCAAAGC
TCGCCAGTACCCTTGGGGTGTTGTACAAGTGGAAAACGAAAACCACTATACTTTGTAAAGCTGCAGGAAATGCTCATTTG
TACAAATATGGAGGACCTGCGAGAGCAGACCCTTACCAGGCACTATGAGCTTTACAGGCGCTGCAAACTGGAGGAAATGG
GCTTTACAGATGTGGGCCCAGAAAACAAGCTGGTCAGTCTTCAAGAGACCTATGAAGCCAAAAGACGTGAGTTCCATGGT
GAACGTCAGAGGAAGGAAGAAGAAATGAAGCAGATGTTTGTTGTGCAGTGAGAAAAGGAGAAAGAAGCCATATTGAAAGA
AGCTGAGAGAGCTACAGGCCAAATTTGAGCACCTTAAGAGACTTCACCAAGAAGAGAGAATGAAGCTTGACGAAAAGAGA
AGACTTTTGGAAGAAGAAATAATTGCTTTCTCTAAAAAGAAAGCTACCTCCGAGATATTTCACAGCCAGTCCTTTCTGGC
AACAGGCAGCAACCTGAGGAAGGACAATGACCGTAAG

Alignment

ORF - retro_nleu_2111 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.1 %
• Parental protein coverage: 89.23 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LFQSHMATKTTCMISQGSDDEQRKRENIRSLTMSGHVGFESLPDQLVNRSIQQGFCFNILCVGETGIGKS
          LFQSHMATKTTCM.SQGSDDEQRKRENIRSLTMSG.VGFESLPDQLVNRSIQQGFCFNILCVGETGIGKS
Retrocopy LFQSHMATKTTCMSSQGSDDEQRKRENIRSLTMSGRVGFESLPDQLVNRSIQQGFCFNILCVGETGIGKS

Parental  TLIDTLFNTNFEDYESSHFCPNVKLKAQTYELQESNVQLKLTIVNTVGFGDQINKEESYQPIVDYIDAQF
          TLIDTLFNTNFEDY.SSHFCPNVKLKAQTYELQESNVQLKLTIVNTVGFGDQINKEESYQPIVDYID.QF
Retrocopy TLIDTLFNTNFEDYGSSHFCPNVKLKAQTYELQESNVQLKLTIVNTVGFGDQINKEESYQPIVDYIDDQF

Parental  EAYLQEELKIKRSLFTYHDSRIHVCLYFISPTGHSLKTLDLLTMKNLDSKVNIIPVIAKADTVSKTELQK
          EAY.QEELKIKRSLFTYHDSRIHVCLYFISPTGHSLKTLDLLT.KNLDSKVNIIPVIAKADTVSKTELQK
Retrocopy EAYFQEELKIKRSLFTYHDSRIHVCLYFISPTGHSLKTLDLLTVKNLDSKVNIIPVIAKADTVSKTELQK

Parental  FKIKLMSELVSNGVQIYQFPTDDDTIAKVNAAMNGQLPFAVVGSMDEVKVGNKMVKARQYPWGVVQVENE
          FKIK.MSELVSNGVQIYQ.PTDDDTIAKVNAAMNGQLPFAVVGS.DEVKVGN.MVKARQYPWGVVQVENE
Retrocopy FKIKFMSELVSNGVQIYQSPTDDDTIAKVNAAMNGQLPFAVVGSTDEVKVGNEMVKARQYPWGVVQVENE

Parental  NHCD-FVKLREMLICTNMEDLREQTHTRHYELYRRCKLEEMGFTDVGPENKPVSLQETYEAKRHEFHGER
          NH...FVKL.EMLICTNMEDLREQT.TRHYELYRRCKLEEMGFTDVGPENK.VSLQETYEAKR.EFHGER
Retrocopy NHYT<FVKLQEMLICTNMEDLREQTLTRHYELYRRCKLEEMGFTDVGPENKLVSLQETYEAKRREFHGER

Parental  QRKEEEMKQMF-VQRVKEKEAILKEAER-ELQAKFEHLKRLHQEERMKLEEKRRLLEEEIIAFSKKKATS
          QRKEEEMKQMF.VQ..KEKEAILKEAER.........L..........L...............K.K...
Retrocopy QRKEEEMKQMFVVQ*EKEKEAILKEAER<SYRPNLSTLRDFTKKRE*SLTKREDFWKKK*LLSLKRKLPP

Parental  EIFHSQSF-LATGSNLRKDKDRK
          ..F....F.LATGSNLRKD.DRK
Retrocopy RYFTASPF<LATGSNLRKDNDRK

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_2111 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017754	3 retrocopies	retro_cjac_1736, retro_cjac_2879, retro_cjac_828,
Homo sapiens	ENSG00000186522	1 retrocopy	retro_hsap_4060,
Gorilla gorilla	ENSGGOG00000013659	1 retrocopy	retro_ggor_2728,
Myotis lucifugus	ENSMLUG00000017273	1 retrocopy	retro_mluc_2285,
Nomascus leucogenys	ENSNLEG00000001328	1 retrocopy	retro_nleu_2111 ,
Nomascus leucogenys	ENSNLEG00000001673	1 retrocopy	retro_nleu_2152,
Nomascus leucogenys	ENSNLEG00000013873	1 retrocopy	retro_nleu_1848,
Pongo abelii	ENSPPYG00000012144	1 retrocopy	retro_pabe_3335,