RetrogeneDB ID: retro_nleu_632

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397268.1:47260187..47261696(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: VEZF1
• Ensembl ID: ENSNLEG00000008084
• Aliases: None
• Description: None

Sequence

>retro_nleu_632
GCCCATGTAGCTTCCCATCACCAACAGCAGGCAGCACAGAAGAGCTTGCTGCCCCTCCTGAGCTCTGCCGTGGAGCCCCC
TGTTCAGAAACCATTGCTTCCAATACCAGTAACTCAGAAACCCCAGGGTGCACCAGAAACATTAAAGGATGCCATTGGGA
TTAAAAAAGAAAAACCCAAAACTTCATTTGTATGCACTTACTGCAGTAAAGCTTTCAGGGACAGCTGTCACCTGAGGCGC
CATGAATTCTGCCAAACTGGGACCAAGTTGGTGTCCCGGCCAAAGAAAACCCACACCACGGTGTTACCCCTTATCTCTAC
CATCGCTGGGGACAGCAGCCGAACTTTGTTGGTCTCGACCATTGCAGACATCTTGTCAACAGTCACCACATCTTCCTCGG
GCACCAACCCCAGTAGCAGTGCCAGCACCACAGCTATGCCGGTGACTCAATCTGTCAAGAAACTCAGTAAGCCTGTCAAG
AAGAACCGTGCTTGTGAGATGTGTGGGAAGGCCTTCCGAGATGTGTACCATCTCAGTCGGCACAAGCTCTCCCATTCAGA
TGAGACGCCCTTCCAGTGTCCTATTTGCAATCAGCACTTCAAGAGGAAGGACCGGATGACTTACCATGTGAGGTTTCATG
AAGGAGGCATCACCAAACCCTATACTTGCAGTGTTTGTGGGAAAGGCTTCTCAAGGCCTGACCACTTAAGCTGTCACGTA
AAACATGTCCATTCAACAGAAAGACCCTTCAAATGCCAAACGTGCACTGGTGCCTTTGCCACCAAAGACAGACTGCGGAC
ACACATGGTGCACCACGAAGGCAAGGTATCATGTAACATCTGTGGGAAGCTCCCGAGTGCAGCATACATCACCAGCCACT
TAAAGACTCATGGGCAGAGCCAAAGTATCCACTGTAATACATGTAAACAAGGCGTCAGTAAAACAGGCGTAAGTGAAGAG
ACCAGTAACTAAAAGCAGCAGCAGGAGCAGCAGCAACAACAACAACAACAACATGTGACAAGCTGGCCAGGGAAGCAGGT
AGAAACACTGAGACTGTGGGAAGAAGCTGTTAAAGCGAGGAAGAAAGAAGCTGCTAATCTGTGCCAAACCTCCACGGCTG
CTACGGCACCTGTGATTCTCACTACTCCATTCAATATAACATCCTCTGTGTCGTCTGGGACTATGTCAAACCCAGTCACA
GTGGCAGCTGCAATGAGCATGAGAAGTCCAGTAAATGTTTAAAGTGCAGTTAACATAACCAGCCCAATGAACATAGGGCA
TCCTGTAACTATAACCAGTCCATTATCCATGACCTCTCCTTTAACACTCACTACCCCGGTCAACCTCCCCACCCCCGTCA
CTGCCCCAGAGAATACAGCACACCCTGTCACCATCACATCTCCAATGAGTCTGCCCACGCCTATGACATTAGCCGCCCCT
CTCAATATAGCAATGAGACCTGTAGAGAGCATGTCTTTCTAGCCCCAAGCTTTGCCTACATCACCGCCT

Alignment

ORF - retro_nleu_632 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.89 %
• Parental protein coverage: 99.61 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AHEASHHQQQAAQNSLLPLLSSAVEPPDQKPLLPIPITQKPQGAPETLKDAIGIKKEKPKTSFVCTYCSK
          AH.ASHHQQQAAQ.SLLPLLSSAVEPP.QKPLLPIP.TQKPQGAPETLKDAIGIKKEKPKTSFVCTYCSK
Retrocopy AHVASHHQQQAAQKSLLPLLSSAVEPPVQKPLLPIPVTQKPQGAPETLKDAIGIKKEKPKTSFVCTYCSK

Parental  AFRDSYHLRRHESCHTGIKLVSRPKKTPTTVVPLISTIAGDSSRTSLVSTIAGILSTVTTSSSGTNPSSS
          AFRDS.HLRRHE.C.TG.KLVSRPKKT.TTV.PLISTIAGDSSRT.LVSTIA.ILSTVTTSSSGTNPSSS
Retrocopy AFRDSCHLRRHEFCQTGTKLVSRPKKTHTTVLPLISTIAGDSSRTLLVSTIADILSTVTTSSSGTNPSSS

Parental  ASTTALPVTQSVKKPSKPVKKNHACEMCGKAFRDVYHLNRHKLSHSDEKPFECPICNQRFKRKDRMTYHV
          ASTTA.PVTQSVKK.SKPVKKN.ACEMCGKAFRDVYHL.RHKLSHSDE.PF.CPICNQ.FKRKDRMTYHV
Retrocopy ASTTAMPVTQSVKKLSKPVKKNRACEMCGKAFRDVYHLSRHKLSHSDETPFQCPICNQHFKRKDRMTYHV

Parental  RSHEGGITKPYTCSVCGKGFSRPDHLSCHVKHVHSTERPFKCQTCTAAFATKDRLRTHMVRHEGKVSCNI
          R.HEGGITKPYTCSVCGKGFSRPDHLSCHVKHVHSTERPFKCQTCT.AFATKDRLRTHMV.HEGKVSCNI
Retrocopy RFHEGGITKPYTCSVCGKGFSRPDHLSCHVKHVHSTERPFKCQTCTGAFATKDRLRTHMVHHEGKVSCNI

Parental  CGKLLSAAYITSHLKTHGQSQSINCNTCKQGISKTCMSEETSNQKQQQQQQQQQQQQQQHVTSWPGKQVE
          CGKL.SAAYITSHLKTHGQSQSI.CNTCKQG.SKT..SEETSN.KQQQ.Q..Q.......VTSWPGKQVE
Retrocopy CGKLPSAAYITSHLKTHGQSQSIHCNTCKQGVSKTGVSEETSN*KQQQEQ--QXXXXXXXVTSWPGKQVE

Parental  TLRLWEEAVKARKKEAANLCQTSTAATTPVTLTTPFNITSSVSSGTMSNPVTVAAAMSMRSPVNVSSAVN
          TLRLWEEAVKARKKEAANLCQTSTAAT.PV.LTTPFNITSSVSSGTMSNPVTVAAAMSMRSPVNV.SAVN
Retrocopy TLRLWEEAVKARKKEAANLCQTSTAATAPVILTTPFNITSSVSSGTMSNPVTVAAAMSMRSPVNV*SAVN

Parental  ITSPMNIGHPVTITSPLSMTSPLTLTTPVNLPTPVTAPVNIAHPVTITSPMNLPTPMTLAAPLNIAMRPV
          ITSPMNIGHPVTITSPLSMTSPLTLTTPVNLPTPVTAP.N.AHPVTITSPM.LPTPMTLAAPLNIAMRPV
Retrocopy ITSPMNIGHPVTITSPLSMTSPLTLTTPVNLPTPVTAPENTAHPVTITSPMSLPTPMTLAAPLNIAMRPV

Parental  ESMPFLPQALPTSPP
          ESM.F.PQALPTSPP
Retrocopy ESMSF*PQALPTSPP

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_632 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.

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000136451	1 retrocopy	retro_hsap_2902,
Nomascus leucogenys	ENSNLEG00000008084	1 retrocopy	retro_nleu_632 ,
Pan troglodytes	ENSPTRG00000009442	1 retrocopy	retro_ptro_1961,