RetrogeneDB ID: retro_nleu_1808

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397310.1:6823429..6824580(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KRT2
• Ensembl ID: ENSNLEG00000017740
• Aliases: None
• Description: None

Sequence

>retro_nleu_1808
GGGACCATCACTGCTGTCACGGTCAACCAGAGCCTGCTGAACCTGGAGGTGGACCCCAACAACCAGGGCATGTGCACCCA
GGAGAAAGAGCAGATCAAGGCCCTTAACAACAAGTTTGCCTCCTTCATCAACAAGGTGCGGTTCCTGGAGCAGCAGAACA
AGATGCTGGAGACCAAGTGGAGCCTCCTGCAGCAGCAGAAGACAGCTCAGAGCAGCATGGACAACATATTCCAGAGCTAC
ATCAACAACCTTAGGCGGCAGCTGGAGACACTGGGCCAGGAGAAGCTGAAGCTGGAGGCGGAGCTTGGCAACATGCAGGG
GCTGGTGGAGGACTTCAAGAACAAGTATGAGGATGAGATCAATAAGCCTATAGAGATAGAGAATGAATTTGTCCCCATCA
AGAAGGATATGGATGAAGCTTACATGAACAAGGTAGAGCTGGAGTCTAGCCTGGAAGGGCTGACCGACGAGATCAACTTT
CTCAGGCAGCTGTATGAAGAGAAGATCCGGGAGCTGCAGTCCCGGACACACCTGTGGTGCTGTCCATGGACAACAGCCGC
TCCCTGGACATGGACAGTATCATCTCTGAGGTCAAGGCACAGTACAAGGAGATTGCCAACAGCAGCCAGGCTGAGGCTGA
GAGCATGTACCAGATCAAGCATGAGGAGCTGCAGACGCTGGCTGGGAAGCACGGGGATGACCTGCGTCATACAAAGACGG
AGATCTCCGAGGTGAATTGGAACATGAGCCAACTCCAGGCTGAGACTGAGGGCCTCAAAGGCCTGAGGGCTTTCCTGGAG
GCCGCTATCGCAGATGCCAAGCAGCATGAGCAGCTGGTCGTTAAGGATGACAACACCAAGCTGTCCCAGCTGGAGGCCGC
CCTGTAGCAGGCCAAGCAGGACATGGCGTGGCAGCTGCGTGAGTACCAGGAGCTGATGAACGTTAAGCTGGCCCTGGACA
TTGAGATCGCAACCTACAGGAAGCTGCTGGAGGGCGAGGAGAGCCAGCTGGAGTCTGGGATGCAGAACATGAGTATCCAT
ACGAAGACCAGCAGTGGCTATGCTGGTGGGCTGAGCTCAGCTTATGAGGGCCTCACAAGCCCCGGCCTGGGCTCCAGCTT
TAGCTCTGGCACGGGCTCCAGCTCCTTCAGC

Alignment

ORF - retro_nleu_1808 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.51 %
• Parental protein coverage: 61.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GGIHEVSVNQSLLQPLNVKVDPEIQNVKAQEREQIKTLNNKFASFIDKVRFLEQQNQVLQTKWELLQQMN
          G.I..V.VNQSL...LN..VDP..Q....QE.EQIK.LNNKFASFI.KVRFLEQQN..L.TKW.LLQQ..
Retrocopy GTITAVTVNQSL---LNLEVDPNNQGMCTQEKEQIKALNNKFASFINKVRFLEQQNKMLETKWSLLQQQK

Parental  VGTRTINLEPIFQGYIDNLKRYLDGLTAERTSQNSELNNMQDLVEDYKKKYEDEINKRTAAENDFVTLKK
          ..T.......IFQ.YI.NL.R.L..L..E......EL.NMQ.LVED.K.KYEDEINK....EN.FV..KK
Retrocopy --TAQSSMDNIFQSYINNLRRQLETLGQEKLKLEAELGNMQGLVEDFKNKYEDEINKPIEIENEFVPIKK

Parental  DVDNAYMIKVELQSKVDLLNQDLEFLKVLYDAEISQMHQSV-TDTNVILSMDNSRNLDLDSIIAEVKAQY
          D.D.AYM.KVEL.S....L.....FL..LY...I........T..........S...D..SII.EVKAQY
Retrocopy DMDEAYMNKVELESSLEGLTDEINFLRQLYEEKIRELQSRT<TPVVLSMDNSRSLDMD--SIISEVKAQY

Parental  EEIAQRSKEEAESLYHSKYEELQVTAGRHGDSLKEIKIEISELNRVIQRLQGEIAHVKKQCKNVQDAIAD
          .EIA..S..EAES.Y..K.EELQ..AG.HGD.L...K.EISE.N.....LQ.E....K........AIAD
Retrocopy KEIANSSQAEAESMYQIKHEELQTLAGKHGDDLRHTKTEISEVNWNMSQLQAETEGLKGLRAFLEAAIAD

Parental  AEQRGEHALKDARNKLNDLEEALQQAKEDLARLLRDYQELMNVKLALDVEIATYRKLLEGEECRMSGDLS
          A.Q......KD...KL..LE.AL.QAK.D.A..LR.YQELMNVKLALD.EIATYRKLLEGEE........
Retrocopy AKQHEQLVVKDDNTKLSQLEAAL*QAKQDMAWQLREYQELMNVKLALDIEIATYRKLLEGEESQLESGMQ

Parental  SNVTVSVTSSTISSNVTSKAGFGGSGGRESSSGGGYSSGSSS
          .......TSS.......S......S.G..SS...G..S.S.S
Retrocopy NMSIHTKTSSGYAGGLSSAYEGLTSPGLGSSFSSGTGSSSFS

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_1808 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 7 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000017733	8 retrocopies	retro_nleu_1913, retro_nleu_225, retro_nleu_2285, retro_nleu_2421, retro_nleu_2485, retro_nleu_2727, retro_nleu_2787, retro_nleu_672,
Nomascus leucogenys	ENSNLEG00000017740	1 retrocopy	retro_nleu_1808 ,
Nomascus leucogenys	ENSNLEG00000017746	5 retrocopies	retro_nleu_2270, retro_nleu_2596, retro_nleu_354, retro_nleu_457, retro_nleu_852,
Nomascus leucogenys	ENSNLEG00000017748	2 retrocopies	retro_nleu_2823, retro_nleu_3100,
Nomascus leucogenys	ENSNLEG00000017753	1 retrocopy	retro_nleu_1726,
Nomascus leucogenys	ENSNLEG00000017758	2 retrocopies	retro_nleu_593, retro_nleu_726,
Nomascus leucogenys	ENSNLEG00000026579	1 retrocopy	retro_nleu_311,