RetrogeneDB ID: retro_nleu_3012

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397573.1:136024..137319(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000010565
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NOC2L
• Ensembl ID: ENSNLEG00000000013
• Aliases: None
• Description: None

Sequence

>retro_nleu_3012
TCAGCAGTCTGCCGGCACAAGAAGGACACTTTCCTTGGCCCTGTCCTCAAGCAAATGTACATCACGTATGTGAGGAACTG
CAAGTTCACCTCGCCTGGTGCCCTCCCCTTCATCAGTTTCATGCAGCGGACCCTGACGGAGCTGCTGGCCCTGGAGCTGG
GTGTGGCCTACCAGCATGCCTTCCTCTACATCCGCCAGCTCGCCATGCACCTGCGCAACGCCATGACCACCCGCAAGAAG
GAAACGTACCAGTCTGTGTACAACTGGCAGTATGTGCACTGTCTCTTCCTGTGGTGCCAGGTTGTGAGCACTGCGGGCCC
CAGCGAAGCCCTCCAGCCCTTGGTCTACCCCCTTGCCCAGGTCATCATTGGCTGTATCAAGCTCATCCCCACTGCCCGCT
TCTATCCACTGCGAATGCACTGCATCCGTGCCCTGATGCTGCTCTCCAGGAGCTCGGGGGCCTTCATCCCAGTGCTGCCT
TTCATCCTGGAGATGTTCCAGCAGGTCGACTTCAACAGGACGCTGGGGCGCATGAGCTCCAAGCCCATCAACTTCTCTGT
GATCCTGAAGCTGTCCAATGTCAACCTGCAGGAGAAGGTGTACCGGGACGGCCTGGTGGAGCAGCTGTACGACCTCACCC
TGGAGTACCTGCACAGCCAGGCACACTGCATCAGCTTCCCAGAGCTGGCGCTGCCTGTGGTCCTGCAGCTGAAATCATTC
CTCCGGGAATGCAAGGTGGCCAACTACTGCCGGCAGGTGCAGCAGCTGCTTGGGAAGGTTCAGGAGAACTCCGAACACAT
CTGCAGCCACTGCCAGAGGATTTCTTTCGGCGTCTCTGACTGGCAGGCAGTGGAAGCCTGGGAGAAGCTGACCCGGGAAG
AGGGTACCCTCCGACCTTGTACTACAGCCACTGGCACAAGCTGCGTGACCGGGAGGTCCAGCTGGAGATCAGTGGCAAAG
AGCGGCTGGAAGACCTGAACTTCCCTGAGATCAAACGAAGGAAGGTGGCTGACAGGAAGGATGAGGACAGGAAGCAATTT
AAAGACCTCTTTGATCTGAACAGCCCTGAAGAGGACGACACCGAGGGATTCTCGGAGAGAGGGATACTGGGGCCCCTGAG
CACTTGGCATGGGGTGGAAGAGGATGAAGAGGACGAGGAGGAGGGCAAGGAGGACAGCAGCAACTCAGAAGATGGAGACC
CAGACGCAGAGGCAGGGCTGGCCCCTGGGGAGCTGCAGCAGCTGGCCCAGGGGCCTGAGGACGAGCTGGAGGATCTGCAG
CTCTCAGAGGAGGAC

Alignment

ORF - retro_nleu_3012 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.71 %
• Parental protein coverage: 57.76 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SRVCRHKKDTFLGPVLKQMYITYVRNCKFTSPGALPFISFMQRTLTELLALEPGVAYQHAFLYIRQLAIH
          S.VCRHKKDTFLGPVLKQMYITYVRNCKFTSPGALPFISFMQRTLTELLALE.GVAYQHAFLYIRQLA.H
Retrocopy SAVCRHKKDTFLGPVLKQMYITYVRNCKFTSPGALPFISFMQRTLTELLALELGVAYQHAFLYIRQLAMH

Parental  LRNAMTTRKKETYQSVYNWQYVHCLFLWCRVLSTAGPSEALQPLVYPLAQVIIGCIKLIPTARFYPLRMH
          LRNAMTTRKKETYQSVYNWQYVHCLFLWC.V.STAGPSEALQPLVYPLAQVIIGCIKLIPTARFYPLRMH
Retrocopy LRNAMTTRKKETYQSVYNWQYVHCLFLWCQVVSTAGPSEALQPLVYPLAQVIIGCIKLIPTARFYPLRMH

Parental  CIRALTLLSGSSGAFIPVLPFILEVTLASSLSR-VSRMVLLRVLGAVLGNVGPLGMKAAAARADGLVEQL
          CIRAL.LLS.SSGAFIPVLPFILE........R...RM........V..............R.DGLVEQL
Retrocopy CIRALMLLSRSSGAFIPVLPFILEMFQQVDFNRTLGRMSSKPINFSVILKLSNVNLQEKVYR-DGLVEQL

Parental  YDLTLEYLHSQAHCIGFPELVLPVVLQLKSFLRECKVANYCRQVQQLLGKVQENSAHICSRRQRVSFGVS
          YDLTLEYLHSQAHCI.FPEL.LPVVLQLKSFLRECKVANYCRQVQQLLGKVQENS.HICS..QR.SFGVS
Retrocopy YDLTLEYLHSQAHCISFPELALPVVLQLKSFLRECKVANYCRQVQQLLGKVQENSEHICSHCQRISFGVS

Parental  DQQAVEAWEKLTREEGT-PLTLYYSHWRKLRDREIQLEISGKERLEDLNFPEIKRRKVADRKDEDRKQFK
          D.QAVEAWEKLTREEGT.P.TLYYSHW.KLRDRE.QLEISGKERLEDLNFPEIKRRKVADRKDEDRKQFK
Retrocopy DWQAVEAWEKLTREEGT<PPTLYYSHWHKLRDREVQLEISGKERLEDLNFPEIKRRKVADRKDEDRKQFK

Parental  DLFDLNSSEEDDTEGFSERGILRRLSTRHGVEEDEEDEED----SSNSEDGDPDAEAGLAPGELQRLAQG
          DLFDLNS.EEDDTEGFSERGIL..LST.HGVEEDEEDEE.....SSNSEDGDPDAEAGLAPGELQ.LAQG
Retrocopy DLFDLNSPEEDDTEGFSERGILGPLSTWHGVEEDEEDEEEGKEDSSNSEDGDPDAEAGLAPGELQQLAQG

Parental  PEDELEDLQLSEED
          PEDELEDLQLSEED
Retrocopy PEDELEDLQLSEED

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_3012 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000000013	1 retrocopy	retro_nleu_3012 ,