RetrogeneDB ID:

retro_nleu_557

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397267.1:5680034..5681798(-)
Located in intron of:ENSNLEG00000001093
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSNLEG00000026811
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_557
ATGGCCTTTGATGAGGAGATGGGGTCTGATAGTGCCGAGCTCTTCCACAAGCAGCTGCATAAGCTGCGGTACACGCCGGA
TGTCAGGGCCACCTTCTCCTTCACCCTGGGCTCTACCTACACACCCAGCTGGCCACCCCGAGTCACCAAGAACAAGGGTC
CTTCCCTCAGAACCCTGTCCTGGAACCTGGTTAAGAACGTCAAGAAGACCATCGGGCGGCAGCATGCCACTCGCAGGAAG
TACAACCCTCCCCCTCAGCTAGGAGCACTGGGGCCGGCCGCCGCCTGAGGACCAGGAGGACGAGGTCTCAGTGTCGGAGG
AGCTGGAGCCCAGCATGCTGACCCCGTCCTCAGCCCTGAAGTGGACCGCATGACTATCAGCAGCCTCCTGGTGGAAAGGG
CGTGCTGCTGCGACTACCAGTGCCTCGGCCTGGGCACCCTGAGCAGCCGCCTGAGCTGGGCCAAGCCTGAATCCTTCCGC
ATTTCTCCGGTCAACCGCATGTACGCCATCTACCGCAGCTACCCGGGGCTGCTGATCATGCCCCAGAGTGTCGAGGACAA
CGCCCTGCAGCGCGTGTCCCACTGCTACCGCCAGAACCGCTTCGCCGTTGTCTGCTGGTGCAGCGGGCGGTCCAAGGCAG
TACTGCTGCGTTCTGGGGGCCTGTATGGCATAGGTGTCGTCGGCCTCTTTTAGGCCCAGAACGCACCTTCTCCAGGCCAG
TTCCAGGCAGACTCGAGTAGCCTGGAGCACAAGTACCTGCAGGCTGTGGTCAGCTCCATGCCCCGCTACTCCGGTGCGTC
CAGACGCAACACACTTAGCAGCTTCTCCTCAGCCCACATGGGCAGTCACATTCGCAGTCCCGGAGCCAGGGTCACCACGC
CGTCCAACTCCATGGCGGTGGCATCCACACTGACTGCACCCCGAGGTAAGTGGGGGCAGTGTCTGGGCCAGTGGGCGCAG
CAGTGGGCTTGGTGGCAATGTGGGCTCCCAGCTAGCTGGCAGAGAGGCGCTGGCCCCACCCCAGGCCAACGGGTGTCCCC
TGCCCCCCGACCCGGGCTTCCTGTGGCCACAGCGAGCAGCCGTCTACATCCTCAGGGACAAAGGCCAGCTCAGGAGTGTG
CGGCCGGACCCCCTGCAGCAGTGGGAGCTGGTGCCCATTGAGGTATTCCAGGCGCGGCAGGTGAAGGCTAGCTTCAAGAA
GCTGCTGAAGGCATGTGTCCCGGGCTGCCCTGCTGCTGAGCCCAGCCTAGCCTCCTTCCTGCGCTTGCTGAAGGACTCGG
AGTGGCTGATCCGGATCCACAAGCTGCTGCAGGTGTCGGTGCTGTGGAGGGAGCTCCTGGACTCAGGCTCCTCCGTGCTG
ATGGGCCTGGAGGACGGCTGGGACATCACCACCCAGGTGGTATCCTTGCTGCAGCTGTTCTCAGGCCCCTACTACTGCAC
GCTGGAGGGGTTCCGCCTGCTGGTGGAGAAGGAGTGGCTGTCCTTCACTCATCGCTTCAGCCACCGGGGAGCCCACATTC
TGGCTGGACAGAGCAGTGGCTTCACACCATCTTCCTGTAGTTCCTGGACTGCCTACACCAGGTCCACCTGCAGTTACCCA
TGGAGTTTGAGTTCAGCCAGTTCTATCTCAAGTTCCTCGGCTACCACCACGTGTCCCGCTGTTTCCAGACCTTCCTGCTG
GACTCTGACTGTGAGCACATTGAGCTGGGGCTGCTGTAGGAGGAGAAGGGGCAGTGCAGGGGCCAGATGCCTTGCAGGTC
TGTG

ORF - retro_nleu_557 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.15 %
Parental protein coverage: 65.15 %
Number of stop codons detected: 5
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMAFDEEVGSDSAELFRKQLHKLRYPPDVRATFAFTLGSAHTPGRPPRVTKDKGPSLRTLSRNLVKNAKKT
MAFDEE.GSDSAELF.KQLHKLRY.PDVRATF.FTLGS..TP..PPRVTK.KGPSLRTLS.NLVKN.KKT
RetrocopyMAFDEEMGSDSAELFHKQLHKLRYTPDVRATFSFTLGSTYTPSWPPRVTKNKGPSLRTLSWNLVKNVKKT
ParentalIGRQHVTRKKYN-PP-SWEHRGQPPPEDQEDEISVSEELEPSTLTPSSALKPSDRMTMSS-LVERACCRD
IGRQH.TR.KYN.PP.S.EH.G.PPPEDQEDE.SVSEELEPS.LTPSSALK........S.LVERACC.D
RetrocopyIGRQHATRRKYNPPP>S*EHWGRPPPEDQEDEVSVSEELEPSMLTPSSALKWTA*LSAAS<LVERACCCD
ParentalYQRLGLGTLSSSLSRAKSEPFRISPVNRMYAICRSYPGLLIVPQSVQDNALQRVSRCYRQNRFPVVCWRS
YQ.LGLGTLSS.LS.AK.E.FRISPVNRMYAI.RSYPGLLI.PQSV.DNALQRVS.CYRQNRF.VVCW.S
RetrocopyYQCLGLGTLSSRLSWAKPESFRISPVNRMYAIYRSYPGLLIMPQSVEDNALQRVSHCYRQNRFAVVCWCS
ParentalGRSKAVLLRSGGLHGKGVVGLFKAQNAPSPGQSQADSSSLEQEKYLQAVVSSMPRYADASGRNTLSGFSS
GRSKAVLLRSGGL.G.GVVGLF.AQNAPSPGQ.QADSSSLE..KYLQAVVSSMPRY..AS.RNTLS.FSS
RetrocopyGRSKAVLLRSGGLYGIGVVGLF*AQNAPSPGQFQADSSSLE-HKYLQAVVSSMPRYSGASRRNTLSSFSS
ParentalAHMGSHVPSPRARVTTLSNPMAASASRRTAPRGKW-GSVRTSGRSSGLGTDVGSRLAGRDALAPPQANGG
AHMGSH..SP.ARVTT.SN.MA..AS..TAPRGKW.GSV..SGRSSGLG..VGS.LAGR.ALAPPQANG.
RetrocopyAHMGSHIRSPGARVTTPSNSMAV-ASTLTAPRGKW>GSVWASGRSSGLGGNVGSQLAGREALAPPQANGC
Parental--PPDPGFLRPQRAALYILGDKAQLKGVRPDPLQQWELVPIEVFEARQVKASFKKLLKACVPGCPAAEPS
..PPDPGFL.PQRAA.YIL.DK.QL..VRPDPLQQWELVPIEVF.ARQVKASFKKLLKACVPGCPAAEPS
RetrocopyPLPPDPGFLWPQRAAVYILRDKGQLRSVRPDPLQQWELVPIEVFQARQVKASFKKLLKACVPGCPAAEPS
ParentalPASFLRSLEDSEWLIQIHKLMQVSVLVVELLDSGSSVLVGLEDGWDITTQVISLVQLLSDPFYRTLEGFR
.ASFLR.L.DSEWLI.IHKL.QVSVL..ELLDSGSSVL.GLEDGWDITTQV.SL.QL.S.P.Y.TLEGFR
RetrocopyLASFLRLLKDSEWLIRIHKLLQVSVLWRELLDSGSSVLMGLEDGWDITTQVVSLLQLFSGPYYCTLEGFR
ParentalLLVEKEWLSFGHRFSHRGAHTLAGQSSGFTP-VFLQFLDCVHQVHLQFPMEFEFSQFYLKFLGYHHVSRR
LLVEKEWLSF.HRFSHRGAH.LAGQSSGFTP..FL.FLDC.HQVHLQ.PMEFEFSQFYLKFLGYHHVSR.
RetrocopyLLVEKEWLSFTHRFSHRGAHILAGQSSGFTP<IFL*FLDCLHQVHLQLPMEFEFSQFYLKFLGYHHVSRC
ParentalFRTFLLDSDYERIELGLLYEEKGERRGQLPCRSV
F.TFLLDSD.E.IELGLL.EEKG..RGQ.PCRSV
RetrocopyFQTFLLDSDCEHIELGLL*EEKGQCRGQMPCRSV

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Nomascus leucogenys was not studied using ChIP-Seq data.

EST - click to see more details

Nomascus leucogenys was not studied using EST data.

TSS - click to see more details

Nomascus leucogenys was not studied using FANTOM5 data.

Lab - click to see more details

retro_nleu_557 was not experimentally validated.

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.
Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species Parental gene accession Retrocopies number
Nomascus leucogenys ENSNLEG000000071381 retrocopy
retro_nleu_2239,
Nomascus leucogenys ENSNLEG00000026811 2 retrocopies
retro_nleu_2491, retro_nleu_557 ,


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