RetrogeneDB ID: retro_nleu_1586

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397300.1:18747159..18748370(+)
• Located in intron of: ENSNLEG00000004792

Retrocopy information

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

Parental gene information

• Parental gene symbol: EIF2AK1
• Ensembl ID: ENSNLEG00000000992
• Aliases: None
• Description: None

Sequence

>retro_nleu_1586
GGCTGGGCTGCAGCCCACGAGCACAAAGAGGAGGGCCACGGGGTGGGGACTGTTGCTGTGCCATCTGCCATCGACTTTTC
CGCCAAGAGCCTGGACTCCAAATATGACTTATATTCCAGCAGAACTCCAGGTATTAATAGAACCTCTACAAAAGCCAACT
TTCCCTGTTGCAGTTGCAAACCAGCTCCTGCTTATTTCTTTGGTGAAGCACTTGAGCCGTGTGCATGAACCAAACCCAGT
TCATTCAAGACAGGTGTTTAAGTTACTTTGCCAGACCTTTATCAAAATGGGGCTGCTGTCTTCTTTCACTTGTGACAAGT
TTAGCTCATTGAGACTACATCACCACAGAGCTGTTACTCACTTAATGAGGTCCACTAAAGAGAGAGCTCATCGGGATCCT
TGTAAGGCTATTTCTCATATCCAGAAAATCAGATCAAGGGAAGTAGCCTTTGAAGCACAAACTTCACGTTACTTAAATGA
ATTTGAAGAACTTGCCATCTTAGGAAAAGGTGGATATGGAAGAGTATACAAGGTCAAGAATAAATTAGATGGTCAGTATT
ACGCAATTTAAAAAATCCTGATTAAGGGTGCAACTCAAACACATGGCATGAAGGAACTACAGGGAATGAAGGTGCTGGCA
GGTCTTCAGCACCCTAATATCATTCGTTATCACACTGCGTGGACAGAACATGTTCAAGTGGTCCAACCACAAGCAGACAG
AGCTTCCATTCAGTTGCCATTTCTGGAAGTGTTCTCCGACCAAGCAGAGGACAGATACCAATACAGTGTTAAAAATGGTG
AAAGTAGCAGCTCATCCATTATCTTCGCTGAGCTCACCTCAGAAAAGAAAAACCCTTTGCAGAATCTGACACTCAGAATA
ACAAGCTGTGAACTACACCATCAATTCTGTCTTAAGAGACACCAGTGAATTTGAATCATCCCTGGAGCTCCAGGAAAATG
GCCTGGCTGGTTTGTCTACCTGGTCAATTGTGAAACAGCCCCTGCTGCTCAGGTGTAATTCCCTCCTAGAGGAGAATTTC
ACATCCACTGAGGAATCTTCCGAAGAAAACTTCAACTTGTTGGGGATAGAGGTGCAGTACCACCTGATGCTGCACATCCA
GATGCAGGTGTGCAAGCTCCAGCTGTGGGACTGGCTAGCCGAGAGAAACAAACAGGGCCAAGAGTGTGTGGACAAGTTTG
CCTGTCCTTAT

Alignment

ORF - retro_nleu_1586 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.4 %
• Parental protein coverage: 65.08 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GNSGVRKREEEGDGAGAVAAPPAID-FPAEGPDPKYDESDVPAELQVLKEPLQQPTFPFAVANQLLLVSL
          G........EEG.G.G.VA.P.AID.FP.....P.......PAELQVL.EPLQ.PTFP.AVANQLLL.SL
Retrocopy GWAAAHEHKEEGHGVGTVAVPSAID>FPPRAWTPNM--TYIPAELQVLIEPLQKPTFPVAVANQLLLISL

Parental  LEHLSHVHEPDPLRSRQVFKLLCQTFIKMGLLSSFTCSDEFSSLRLHHNRAITHLMRSAKERVRQDPCED
          ..HLS.VHEP.P..SRQVFKLLCQTFIKMGLLSSFTC.D.FSSLRLHH.RA.THLMRS.KER...DPC..
Retrocopy VKHLSRVHEPNPVHSRQVFKLLCQTFIKMGLLSSFTC-DKFSSLRLHHHRAVTHLMRSTKERAHRDPCKA

Parental  ISHIQKLRSREVALEAQTSRYLNEFEELAILGKGGYGXXXXVRNKLDGQYYAIKKILIKGATKTVCMKVL
          ISHIQK.RSREVA.EAQTSRYLNEFEELAILGKGGYG....V.NKLDGQYYAI.KILIKGAT.T..MK.L
Retrocopy ISHIQKIRSREVAFEAQTSRYLNEFEELAILGKGGYGRVYKVKNKLDGQYYAI*KILIKGATQTHGMKEL

Parental  REVKVLAGLQHPNIVGYHTAWIEHVHVIQPQADRAAIELPSLEVLSDQEEDRDQYGVKNDESSSSSIIFA
          ...KVLAGLQHPNI..YHTAW.EHV.V.QPQADRA.I.LP.LEV.SDQ.EDR.QY.VKN.ESSSSSIIFA
Retrocopy QGMKVLAGLQHPNIIRYHTAWTEHVQVVQPQADRASIQLPFLEVFSDQAEDRYQYSVKNGESSSSSIIFA

Parental  EPTPE-KEKRFGESDTENQNNK-SVKYTTNLVIRDSGELESTLELQENGLAGLSASSIVEQQLPLRRNSH
          E.T.E.KEK.F.ESDT..QNNK..V.YT.N.V.RD..E.ES.LELQENGLAGLS..SIV.Q.L.LR.NS.
Retrocopy ELTSE<KEKPFAESDT--QNNK<AVNYTINSVLRDTSEFESSLELQENGLAGLSTWSIVKQPLLLRCNSL

Parental  LEESFTSTEESSEENVNFLAQTEAQYHLMLHIQMQLCELSLWDWIAERNKRGREYVDESACPY
          LEE.FTSTEESSEEN.N.L...E.QYHLMLHIQMQ.C.L.LWDW.AERNK.G.E.VD..ACPY
Retrocopy LEENFTSTEESSEENFNLLG-IEVQYHLMLHIQMQVCKLQLWDWLAERNKQGQECVDKFACPY

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_1586 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	ENSG00000086232	1 retrocopy	retro_hsap_2713,
Nomascus leucogenys	ENSNLEG00000000992	1 retrocopy	retro_nleu_1586 ,
Pan troglodytes	ENSPTRG00000018904	1 retrocopy	retro_ptro_1833,