RetrogeneDB ID: retro_nleu_1114

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397281.1:26087937..26088814(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000010089
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MOGAT1
• Ensembl ID: ENSNLEG00000009685
• Aliases: None
• Description: None

Sequence

>retro_nleu_1114
ATAGTCCTCCTGTTTACAAGATTCTGGCTCCTCGCTGTCCTGTATGCGGCCTGGTGGTACCTGGACCGAGATAAGCCACG
GTGGGGTCCGGCACGTCCAGGCCATCAGGTGTTGGACTCTATGGAAGTACATGAAGGACTATTTCCCCATCTCGCTGGTC
AAGACTGCTGAGCTGGACCCCTCTCGGAACTACATTGCGGGCTTCCACCCCCATGGAGTCCTGGCAGTCGGAGCCTTTGC
CAACCTGTGCACTGACAGCACGGGCTTCTCTTCGATCTTCCCCGGTATCCGCCCCCATCTGATGATGCTGACCTTGTGGT
TCCGGGCTCCCTTCTTCAGAGATTACATCATGTCTGCAGGGTTGGTCACATCAGAAAAGGAGAGCGCTGCTCACATTCTG
AACAGGAAGGGTGGCGGAAACTTGCTGGGCATCATTGTAGAGGGTGCCCAGGAGGCCCTGGATGCCAGGCCTGGATCCTT
CACGCTGTTACTGAGGAACCGAAAGGGCTTCGTCAGGCTCGCCCTGACACACGTGGCACCCCTGGTGCCAATCTTCTCCT
TCGGGGAGAATGGCCTATTTGACCAGATTCCCAACTCTTCTGGCTCCTGGTTGCGCTGTATCCAGAATTGGTTGCAGAAG
ATCATGGGCATCTCCCGCCCACTCTTTCATGGCCGTGGTGTCTTCCAGTACAGCTTTGGTTTAATATCCTACCGCCGGCC
CATCACCACTGTGGTGGGGAAGCCCATCGAGGTACAGAAGACGCTGCATCCCTCGGAGGAGGAGGTGAACCAGCTGCACC
AGCGCTATATCAAAGAGCTGTGCAACCTCTTCGAGGCCCACAAACTTAAGTTCAACATCCCTTCTGACCAACACTTG

Alignment

ORF - retro_nleu_1114 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.92 %
• Parental protein coverage: 92.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VMLIIHNYWFLYIPYLTWLYFDWHTPEGG-RRSSWIKNWTLWKHFKDYFPIHLIKTQDLDPSHNYIFGFH
          ..L.....W.L...Y..W.Y.D...P..G.R....I..WTLWK..KDYFPI.L.KT..LDPS.NYI.GFH
Retrocopy IVLLFTRFWLLAVLYAAWWYLDRDKPRWG>RHVQAIRCWTLWKYMKDYFPISLVKTAELDPSRNYIAGFH

Parental  PHGIMAVGAFGNFSINYSDFEDLFPGFSSYLHVLPLWFWCPVFREYVMSARLVSVSKKSMSYMVSKEGGG
          PHG..AVGAF.N.......F...FPG....L..L.LWF..P.FR.Y.MSA.LV...K.S........GGG
Retrocopy PHGVLAVGAFANLCTDSTGFSSIFPGIRPHLMMLTLWFRAPFFRDYIMSAGLVTSEKESAAHILNRKGGG

Parental  NISVIVLGGAKESLDAHPGKFTLFICQRKGFVKIALTHGASLVPVFSFGENELFKQIDNPEGSWIRTVQN
          N...I...GA.E.LDA.PG.FTL....RKGFV..ALTH.A.LVP.FSFGEN.LF.QI.N..GSW.R..QN
Retrocopy NLLGIIVEGAQEALDARPGSFTLLLRNRKGFVRLALTHVAPLVPIFSFGENGLFDQIPNSSGSWLRCIQN

Parental  KLQKIMGFALPLFHARGVFQYNFGLMPYRKAIHTVVGRPIPVHQTLHPTQEQIEELHQTYTEELRKLFEE
          .LQKIMG...PLFH.RGVFQY.FGL..YR..I.TVVG.PI.V..TLHP..E....LHQ.Y..EL..LFE.
Retrocopy WLQKIMGISRPLFHGRGVFQYSFGLISYRRPITTVVGKPIEVQKTLHPSEEEVNQLHQRYIKELCNLFEA

Parental  HK-GYGIPEHETL
          HK....IP....L
Retrocopy HKLKFNIPSDQHL

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_1114 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	ENSNLEG00000009685	1 retrocopy	retro_nleu_1114 ,