RetrogeneDB ID:

retro_nleu_2327

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397343.1:7476427..7477934(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HNRNPL
Ensembl ID:ENSNLEG00000014696
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_2327
GAGAACTACAGTGACCCACACAAAACCCCTGCCTCCCCAGTTGTCCACATTAGGGGCCTAATTGACGGTGTGGTGGAAGC
TGACCTTGTGGAGGCCTTGCAGGAGTTTGGACCCATCAGCTATGTGACGGTAACGCCTAAAAAGAGACAAGCACTGGTGG
AGTTTGAAGATGTGCTGGGGGCTTGCAACGCAGTGAACTACACAGCCGACAACCAAATACACATTGCCGGTCACCCAGCT
TTTGTCAACTACTCTACCAGCCAGAAGATCTCCCTCCGCGGGAACTCGGATGACTCCCGGAGAGTGAACACTGTGCTTCT
TTCCTTTATCATCCTGAACCCCATCTATTCGATCACCACGGATGTTCTTTACACTATTGGCAATCCTTGTGGCCCCTGTC
CCGAGAATTGCCATTTTCCCGGAAGAATGGAGTTTCAGGCCATGGTGGGAATTTGACTGTGTTCAAAGTGCCAGTGGGCC
AAGGCCTCACTCAGTGGGGCTGAAATCTATTCTGGCTGTTGCACTCTGAAGATCGAATACGCAAAGCCTGCATGCTTGAA
TGTGTTCAAGAATAATCAGGATACTTGGGACTATACAAACCCCAATCTCAGTGGACAAGGTGACCCTGGCAGCAACCCCA
ACAAACGCCAGAGGCAGCCCCCTCTCCTGGGAGATCACCCCACAGAATATGGAGGGCCCCACTGTGGGTATCACAGCCAT
TGCCATGATGAGGGCTACAGCCCCCCAGCCCCCGACCTCACTACGAAGGGAAAAGGATGGGTCTACCAGTGGGGGGGAGT
CGCTGTCGGGGCCCAAGTCGCTACGGCCCCCAGTATGGGCACCCCCCGCCCCCTCCCGACCACTCGAGCATGGCCCTCAC
TCCGACAGCCCTTTGCTCATGGTCTATGGTTTGGATCAATCTAAGATGAACTGTGACCAAGTCTTCAATGTCTTCTGCTT
GTATAGCAATGTGGAGAAGGTGAAATTCATGAAAAGCAAGCCGGGGGCCGCCATGGTGGAGATGGCTGATGGCTACACTG
TGGACCGGGCCACTACCCACCTCAGCAACAACTTCATGTTTGGGCAGAAGCTGAATGTCTGTCTCCAAGCAGCCAGCCAT
CAGCTCAGTCAGTCATGCGGGTTGGAAGTCAGGTCTTGCAGTTACAGAGACTTCAGTGAATCCCGAACAATGGGTTCCCC
ACTCCGGAGCGGGCAGCGAAGAACCGCATCCAGCACCCCAGCAGCAACGTGCTGCACCTCTCAACGCCCCGCTGGAGGTG
ACTGAGAACTTCTTTGAGATCTGCGATGAGCTGGGCGTGAAGCGTCCATCTTCTGTGACAGTATTCTCAGGCAAAAGTGA
GAGCAGCTCCTCTGGACTGCTGGAGTGGGAATCCAAGAGCGATGCCCTGGAGGCTCGGGGCTTCCTGAACCATTACCAGA
TGAAAAACCCAAATGGTCCATACCTTACTCTCTGAAGCTGTGTTTCTCCAACGCTCAGCATGCCTCC

ORF - retro_nleu_2327 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.27 %
Parental protein coverage: 84.89 %
Number of stop codons detected: 0
Number of frameshifts detected 10


Retrocopy - Parental Gene Alignment:

ParentalENYDDPHKTPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQALVEFEDVLGACNAVNYAAD
ENY.DPHKTPASPVVHIRGLIDGVVEADLVEALQEFGPISYV.V.PKKRQALVEFEDVLGACNAVNY.AD
RetrocopyENYSDPHKTPASPVVHIRGLIDGVVEADLVEALQEFGPISYVTVTPKKRQALVEFEDVLGACNAVNYTAD
ParentalNQIYIAGHPAFVNYSTSQKISRPGDSDDSRSVNSVLL-FTILNPIYSITTDVLYTICNPCGP-VQRIVIF
NQI.IAGHPAFVNYSTSQKIS..G.SDDSR.VN.VLL.F.ILNPIYSITTDVLYTI.NPCGP.V.RI.IF
RetrocopyNQIHIAGHPAFVNYSTSQKISLRGNSDDSRRVNTVLLSFIILNPIYSITTDVLYTIGNPCGP>VPRIAIF
Parental-RKNGV-QAMV-EFDSVQSA-QRAKASLNGADIYSGCCTLKIEYAKPTRLNVFKNDQDTWDYTNPNLSGQ
.RKNGV.QAMV.EFD.VQSA.Q.AKASL.GA.IYSGCCTLKIEYAKP..LNVFKN.QDTWDYTNPNLSGQ
Retrocopy>RKNGV>QAMV>EFDCVQSA<QWAKASLSGAEIYSGCCTLKIEYAKPACLNVFKNNQDTWDYTNPNLSGQ
ParentalGDPGSNPNKRQRQPPLLGDHPAEYGGPHGGYHSHYHDE-GYGPPPP--HYEGRRMGPPVGGHR-RGPSRY
GDPGSNPNKRQRQPPLLGDHP.EYGGPH.GYHSH.HDE.G..PP.P..HYEG.RMG.PVGG.R.RGPSRY
RetrocopyGDPGSNPNKRQRQPPLLGDHPTEYGGPHCGYHSHCHDE<GLQPPSPRPHYEGKRMGLPVGGSRCRGPSRY
ParentalGPQYGHPPPPPP-PPEYGPHADSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMAD
GPQYGHPPPPP..P.E.GPH.DSP.LMVYGLDQSKMNCD.VFNVFCLY.NVEKVKFMKSKPGAAMVEMAD
RetrocopyGPQYGHPPPPPD<PLEHGPHSDSPLLMVYGLDQSKMNCDQVFNVFCLYSNVEKVKFMKSKPGAAMVEMAD
ParentalGYAVDRAITHLNNNFMFGQKLNVCVSKQPAIMPGQSYGLEDGSCSYKDFSESR-NNRFSTPEQAAKNRIQ
GY.VDRA.THL.NNFMFGQKLNVC..........QS.GLE..SCSY.DFSESR.NN.F.TPE.AAKNRIQ
RetrocopyGYTVDRATTHLSNNFMFGQKLNVCL-QAASHQLSQSCGLEVRSCSYRDFSESR<NNGFPTPERAAKNRIQ
ParentalHP-SNVLHF-FNAPLEVTEENFFEICDELGVKRPSSVKVFSGKSERSSSGLLEWESKSDALETLGFLNHY
HP.SNVLH...NAPLEVT.ENFFEICDELGVKRPSSV.VFSGKSE.SSSGLLEWESKSDALE..GFLNHY
RetrocopyHPSSNVLHL<LNAPLEVT-ENFFEICDELGVKRPSSVTVFSGKSESSSSGLLEWESKSDALEARGFLNHY
ParentalQMKNPNGPY-PYTLKLCFSTAQHAS
QMKNPNGPY.PY.LKLCFS.AQHAS
RetrocopyQMKNPNGPY<PYSLKLCFSNAQHAS

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






Nomascus leucogenys was not studied using RNA-Seq expression data.
Nomascus leucogenys was not studied using ChIP-Seq data.
Nomascus leucogenys was not studied using EST data.
Nomascus leucogenys was not studied using FANTOM5 data.
retro_nleu_2327 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 6 parental genes, and 7 retrocopies.

Species Parental gene accession Retrocopies number
Echinops telfairi ENSETEG000000037791 retrocopy
Nomascus leucogenys ENSNLEG000000008641 retrocopy
Nomascus leucogenys ENSNLEG00000014696 1 retrocopy
retro_nleu_2327 ,
Pongo abelii ENSPPYG000000099452 retrocopies
Pan troglodytes ENSPTRG000000109411 retrocopy
Tupaia belangeri ENSTBEG000000165631 retrocopy



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