RetrogeneDB ID: retro_nleu_888

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397275.1:23784644..23785562(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CEP57
• Ensembl ID: ENSNLEG00000007130
• Aliases: None
• Description: None

Sequence

>retro_nleu_888
GCGTTGGTCTCTGCTGCCTCTGCTTCTCAGTTCTCGAACATCTTAGCTGAATCATCAAGGCCTCAAGGAAGTCTGGTTCA
GCATTCTTCATCTCCAAATGTAGTATATCCATCTGATAAGCCTTTCCTTAATAGTGATCTGTGACACTCCCCAAATAAGC
CTACACTTGCCTATCCAGAAAGCAACAGCAGAGCTATATTTTCTGCTCTTAAGAATCTTCAAGGTAAGATTTGACGCTTG
GAACTTGAAAGGATTCCAGCAGAAGAAAGTGTGAAAACCTTGTCTAGAGAAACAATTGAATCCAAGAAAGTACTGGATGA
AGAGATACAGAAAGGGAGAACTCAAAGAATGAAGAATCAAAGCACAATCAAGAACTGATATCTCAGTTGATGGCTGCAGA
AAATTAATGTAATCTTTTAGGAAAACAATTGGAATACATGTGAAGTATGATAACGCATGCAGAAAGGGAGAGGACATCTG
TCTTACAGAAACAGGTTTCCCTAGAAAGAGAACGGCAATACTGTCAAAGACATGTTTGGAGCCAACTTGAAAAATTGAAT
CTTTTTGAATGGGAGTATAACTTTCCACAGTGCAGGCCCTTGCAGAAAGAAAAATGTGAGAGTTGGTAGCAAAACTCTTT
GAAGAAGAACAGGAAAGGAAACATGTACAAACTAAGGCAGCTAAGTTACAGATTGGTCTAGAAACAAATAGACTTATCGT
TGAAGATAAGGCAGGTCCACATTTTCCCAGTGCAGGAAGAATTTTTAAAAAAGTCAAACCACAAGAAAAACTAAGTTCTA
GGAACTATTTTGGTGCACCAGTACATTATAGATTACGCTTGAGTGATGTGCCATTTGTAGCTGGGAAGTCCAAAGTCTTA
GCCATGCTGTGGCAGCCAATGTTCAGCTTGTCTTGCAT

Alignment

ORF - retro_nleu_888 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.32 %
• Parental protein coverage: 61.8 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  ASVSAASCSQLSNSLAEPSRSNGSMVRHSSSPYVVYPSDKPFLNSDLRRSPSKPTLAYPESNSRAIFSAL
          A.VSAAS.SQ.SN.LAE.SR..GS.V.HSSSP.VVYPSDKPFLNSDL..SP.KPTLAYPESNSRAIFSAL
Retrocopy ALVSAASASQFSNILAESSRPQGSLVQHSSSPNVVYPSDKPFLNSDL*HSPNKPTLAYPESNSRAIFSAL

Parental  KNLQDKIRRLELERIQAEENVKSLSRETIEYKKVLDEQIQ-ERENSKNEESKHNQELTSQLLAAENKCNL
          KNLQ.KI.RLELERI.AEE.VK.LSRETIE.KKVLDE.IQ.ERENSKNEESKHNQEL.SQL.AAEN.CNL
Retrocopy KNLQGKI*RLELERIPAEESVKTLSRETIESKKVLDEEIQ<ERENSKNEESKHNQELISQLMAAEN*CNL

Parental  LEKQLEYMRNMIKHAEMERTSVLEKQVSLERERQHDQTHVQSQLEKLDLLEQEYNKLTTMQALAEKKMQ-
          L.KQLEYM..MI.HAE.ERTSVL.KQVSLERERQ..Q.HV.SQLEKL.L.E.EYN.......L...K...
Retrocopy LGKQLEYM*SMITHAERERTSVLQKQVSLERERQYCQRHVWSQLEKLNLFEWEYN-FPQCRPLQKEKCE<

Parental  ELEAKLHEEEQERKRMQAKAAELQTGLETNRLIFEDKATPRVPNARRIKKKKSKPPEKKSSRNYFGAQPH
          EL.AKL.EEEQERK..Q.KAA.LQ.GLETNRLI.EDKA.P..P.A.RI..KK.KP.EK.SSRNYFGA..H
Retrocopy ELVAKLFEEEQERKHVQTKAAKLQIGLETNRLIVEDKAGPHFPSAGRI-FKKVKPQEKLSSRNYFGAPVH

Parental  YRLCLGDMPFVAGKS-TSPSHAVVANVQLVLH
          YRL.L.D.PFVAGKS..S.SHAV.ANVQLVLH
Retrocopy YRLRLSDVPFVAGKS<QSLSHAVAANVQLVLH

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_888 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000996	1 retrocopy	retro_etel_1557,
Homo sapiens	ENSG00000166037	1 retrocopy	retro_hsap_474,
Macaca mulatta	ENSMMUG00000014796	1 retrocopy	retro_mmul_575,
Nomascus leucogenys	ENSNLEG00000007130	1 retrocopy	retro_nleu_888 ,
Nomascus leucogenys	ENSNLEG00000012502	1 retrocopy	retro_nleu_2216,
Tupaia belangeri	ENSTBEG00000003141	1 retrocopy	retro_tbel_2135,