RetrogeneDB ID:

retro_nleu_1557

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397299.1:14594536..14595352(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PHB
Ensembl ID:ENSNLEG00000002978
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1557
ATGGCTGCCAAAGTGTTTGAGTCCATAGGCAAGTTTGGCCTAGTCTAAGCTGTTGCAGGAGGCGTGGTGAACTCTGCCTT
ATATAATGTGGATGCTGGGCACAGAGCTGTCATCCTTGACAGATTCTGTGGAGTACAGGAAATTGTGGTAGGGGAAGGGA
CTCACTTTCTCATCCCATGGGTACAGAAACCAGTTATCTTTGACTGCCATTCTTGACCACGTAATGTGTCAGTCATCACT
GGTAGCAAAGATTTACAGAATGTCAACATCACACTGCACATCCCCTTCCAGCCCGTTGCTAGCCAGCTTCCTTGCATCTT
CACCAGCATCGGAGAGGACTATGATGAGTGTGTGCTGCCATCCATCACAACTGAGATACTCAGGTCAATGGTGGCTTGCT
TTGATGCTGGAGTACTAATTACCCAGAGAGAGCTGGTCTTTAGGCACGTGAGCGACAACCTTATGGAGTGAGCAGCCACC
TTTAGGCTCATCCTGGACAACGTGTCCTTGACATATCTGACCTTCAGGAAGGAGTTTGCAGAAGCAGTGGAAGCCAAACA
GGTGGCTCAGCAGGAAGCAGAGAGGGCCAGATTTGTGGTGGAAAAGGCTAAGCAGCAAAAAAAGGCAGCCATCATCTCTG
CAGAGGATGACTCCAAGGCAGCTGAGCTGATTGCCAACTCACTGGCCACCACAGGGGACGGCCTGATCGAGCTGTGCAAG
CTGTAAGCTGCGGAGGACATCGCATACCAGCTCTCACGCTCTCAGAACATCACCTACTTGCTGGCGGGGCAGTCCATGCT
CCTCCAGCTGCCCCAG

ORF - retro_nleu_1557 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.76 %
Parental protein coverage: 100. %
Number of stop codons detected: 4
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAAKVFESIGKFGLALAVAGGVVNSALYNVDAGHRAVIFDRFRGVQDIVVGEGTHFLIPWVQKPIIFDCR
MAAKVFESIGKFGL..AVAGGVVNSALYNVDAGHRAVI.DRF.GVQ.IVVGEGTHFLIPWVQKP.IFDC.
RetrocopyMAAKVFESIGKFGLV*AVAGGVVNSALYNVDAGHRAVILDRFCGVQEIVVGEGTHFLIPWVQKPVIFDCH
ParentalSRPRNVPVITGSKDLQNVNITLRILFRPVASQLPRIFTSIGEDYDERVLPSITTEILKSVVARFDAGELI
S.PRNV.VITGSKDLQNVNITL.I.F.PVASQLP.IFTSIGEDYDE.VLPSITTEIL.S.VA.FDAG.LI
RetrocopyS*PRNVSVITGSKDLQNVNITLHIPFQPVASQLPCIFTSIGEDYDECVLPSITTEILRSMVACFDAGVLI
ParentalTQRELVSRQVSDDLTERAATFGLILDDVSLTHLTFGKEFTEAVEAKQVAQQEAERARFVVEKAEQQKKAA
TQRELV.R.VSD.L.E.AATF.LILD.VSLT.LTF.KEF.EAVEAKQVAQQEAERARFVVEKA.QQKKAA
RetrocopyTQRELVFRHVSDNLME*AATFRLILDNVSLTYLTFRKEFAEAVEAKQVAQQEAERARFVVEKAKQQKKAA
ParentalIISAEGDSKAAELIANSLATAGDGLIELRKLEAAEDIAYQLSRSRNITYLPAGQSVLLQLPQ
IISAE.DSKAAELIANSLAT.GDGLIEL.KL.AAEDIAYQLSRS.NITYL.AGQS.LLQLPQ
RetrocopyIISAEDDSKAAELIANSLATTGDGLIELCKL*AAEDIAYQLSRSQNITYLLAGQSMLLQLPQ

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_1557 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 16 parental genes, and 120 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000047971 retrocopy
Canis familiaris ENSCAFG000000169261 retrocopy
Choloepus hoffmanni ENSCHOG000000075882 retrocopies
Callithrix jacchus ENSCJAG0000000717422 retrocopies
Erinaceus europaeus ENSEEUG000000064813 retrocopies
Homo sapiens ENSG0000016708515 retrocopies
Gorilla gorilla ENSGGOG0000002800212 retrocopies
Macropus eugenii ENSMEUG000000051221 retrocopy
Myotis lucifugus ENSMLUG000000082032 retrocopies
Macaca mulatta ENSMMUG0000000015613 retrocopies
Monodelphis domestica ENSMODG000000122101 retrocopy
Nomascus leucogenys ENSNLEG00000002978 13 retrocopies
Otolemur garnettii ENSOGAG000000270151 retrocopy
Procavia capensis ENSPCAG000000088511 retrocopy
Pan troglodytes ENSPTRG0000000937614 retrocopies
Rattus norvegicus ENSRNOG0000004679918 retrocopies



Copyright © RetrogeneDB 2014-2017