gene PH01000306G0610
Feature Overview
Species moso bamboo (Phyllostachys edulis) Feature type gene
Genomic location PH01000306:378556 - 403756(- stand)   Name
Alternate name Locus tag PH01000306G0610
Length of gene 25201  bp Length of CDS 771  bp
Product information
Feature type
CDS
Product name
OsMADS18 - MADS-box family gene with MIKCc type-box
Alternate name
Molecular weight
(predicted)
28990.6900199999  kDa
Isoeletric point
(predicted)
9.42886734008789
Length
257  aa
Expression profiles
Expression status (Yes/No)
Yes
Heterozygous SNPs
As a diploid organism, heterozygous SNPs indicate different nucleotides at two bi-allelic loci on the same chromosome.
SNP ID Position Base in Scaffold Polymorphism
PH01SNP02006010 PH01000306:394433 C C_G
PH01SNP02006020 PH01000306:394446 C C_A
PH01SNP02006030 PH01000306:394649 C C_T
PH01SNP02006040 PH01000306:394679 C C_T
PH01SNP02006050 PH01000306:394704 T T_C
PH01SNP02006060 PH01000306:394804 A A_G
PH01SNP02006070 PH01000306:394820 T T_C
PH01SNP02006080 PH01000306:394859 A A_G
PH01SNP02006090 PH01000306:394881 T T_C
PH01SNP02006100 PH01000306:394943 G G_A
PH01SNP02006110 PH01000306:394953 C C_A
PH01SNP02006120 PH01000306:395020 A A_G
PH01SNP02006130 PH01000306:395035 A A_G
PH01SNP02006140 PH01000306:395146 T T_C
PH01SNP02006150 PH01000306:399148 G G_T
PH01SNP02006160 PH01000306:399165 G G_A
PH02SNP00011200 PH01000306:390522 G G->A
Ortholog Groups (determined by OrthoMCL algorithm)
(0 result)
Group ID from orthomcl DB Counts Members of moso bamboo in this ortholog group
Comparative genomics
Best arabidopsis hit
(using TAIR10)
Gene ID Short description Curator summary Computational description E-value
AT1G69120.1
K-box region and MADS-box transcription factor family protein
Floral homeotic gene encoding a MADS domain protein homologous to SRF transcription factors. Specifies floral meristem and sepal identity. Required for the transcriptional activation of AGAMOUS. Interacts with LEAFY.Binds to promoter and regulates the exp
APETALA1 (AP1); CONTAINS InterPro DOMAIN/s: Transcription factor, MADS-box (InterPro:IPR002100), Transcription factor, K-box (InterPro:IPR002487); BEST Arabidopsis thaliana protein match is: K-box region and MADS-box transcription factor family protein (
4E-65
Best rice hit
(using MSU7)
Gene ID Product description E-value
LOC_Os07g41370.1 OsMADS18 - MADS-box family gene with MIKCc type-box, expressed 2E-112
 
Function (determined by interpro in EMBL-EBI)
Protein family membership

None predicted.

Domains and repeats
  1. Domain
1 50 100 150 200 257
Detailed signature matches
    1. PF00319 (SRF-TF)
    2. SM00432 (MADS)
    3. SSF55455 (SRF-like)
    4. PS50066 (MADS_BOX_2)
    5. PR00404 (MADSDOMAIN)
    1. PF01486 (K-box)
    2. PS51297 (K_BOX)
Unintegrated signatures no IPR
Unintegrated signatures
  1. PTHR11945 (MADS BOX...)
GO term prediction

Biological Process

GO:0006355 regulation of transcription, DNA-dependent

Molecular Function

GO:0003677 DNA binding
GO:0003700 sequence-specific DNA binding transcription factor activity
GO:0046983 protein dimerization activity

Cellular Component

GO:0005634 nucleus

You may use PPI function to find protein-protein interactions network about moso bamboo.
Pathways (All the pathways are obtained from KEGG)
(0 result)
KEGG orthology Functional Subsystem Pathway
You may use Pathway function to find more information for detail.
Reactions (All the pathways are obtained from KEGG)
(0 result)
ID for KEGG orthology Reaction description EC number
Structure features (determined by CDD in NCBI)
Conserved domain models
Type PSSM-ID Start Stop E value Accession Short name Superfamily Incomplete ?
specific 238165 2 75 3.34E-41 cd00265 MADS_MEF2_like cl00109 -
superfamily 241616 2 75 3.34E-41 cl00109 MADS superfamily - -
non-specific 197721 2 59 9.05E-32 smart00432 MADS cl00109 -
non-specific 238067 2 59 4.49E-29 cd00120 MADS cl00109 -
non-specific 109379 9 59 2.65E-25 pfam00319 SRF-TF cl00109 -
non-specific 238166 2 85 6.52E-23 cd00266 MADS_SRF_like cl00109 -
specific 216525 87 175 1.02E-17 pfam01486 K-box cl03234 -
superfamily 216525 87 175 1.02E-17 cl03234 K-box superfamily - -
multi-dom 227400 1 59 2.87E-07 COG5068 ARG80 - C
Conserved sites/feature
Type Brief name Coordinates Complete size Mapped size Source domain
specific DNA binding site G2,R3,G4,V6,L8,N13,I15,V19,T20,K23,R24,N26,G27,K30,K31,H33,E34,L38 18 18 238165
specific putative phosphorylation site S59 1 1 238165
specific dimerization interface F21,L28,L29,A32,H33,I35,S36,C39,A44,I46,F48,L54,E56,M64,I67,L68,Y71,Y74,S75 19 19 238165
 
DNA sequence
Upstream 1000 bp region from PH01000306G0610 gene.
GTTTTTTTTTAAATATATACAAAAACTCTCCGGACGAGTTTTTTTTTAAAAAAAAACCTCACTGCATAGCGGTCGTGCGACAGCAGGCAACGTGGCGGCTCGGAAGGCCCTACCGCACGGCGGCCGTGCGGCAGGGCGCTATTTTGCCACCGTGCGGTAGGGCGCTATTTTTGCAAATTCGGTTTTGACACTGTCATTTTTGTAAATACCAAGCGAAAACTCGTTATTTCAACCAAAACTCCCGGGATATGGTCATCCATGTAGATAAGGGCTACCACGCTGGCACGAATGGTAGCTTCAAAAGGCCAATTCTACTTATTTTTTTAAACGGGTACAAGATAAATGCACACACAACGTACAACCCACTCACACCACCATACATATACCCACACATGTACATATCCCCTACACACACTAGATTTTTTTTATGGAGATACCAGACGTCGTGAAGCATGGATACACACTTTTCCGCTGAACACGTACACATATAAGTACCTTTTTCTTTAATTATGAGGCGCGTGAGATTGAACTCCCGAAGTCCAACCTCTAAGGCTCTTAACAGACAGCTCGCTCACCTAGCGTAGCTAGCCATCCGAGTGACAACTAGATCCTCAACTTATTTCGTGTGAGCCCTAACGGACACAATTCCTTCCTGAGTACACTGGAGAGTTGTCGTAGCTTCGGGTGGGTGGTAACTCCATATAATAAAGCTAATATTGAACTTCCAAAATTATAGTTTAGACGTACCATTTCCCAGATGCTGAAACGGAACGAAGTGCCAGTCAAGCCCATGCATTTGCCAAATGTTTAGTACCATACTATTTTAACCTTTTTGAAGAGAAGGTATACAGACCACATCTCCCGTCAATGCACGCACAGAACAGAGGAAGCATACACAGGTAACACAGCGCTACGAAAGGAGACAACTCCAACTACAAGGCCGAGGACATCGATCAGAGAAAAAAGGGAACCGTAAACGCAGAAACAAGACACGAAATCTT
Copy to clipboard
BLAST search against this genome or other genomes in database  
Need more than 1000 bp? Try sequence retrieval tool or view intergenic regions in GBrowse.
CDS sequence
ATGGGGCGCGGGCCGGTGCAGCTACGGCGGATCGAGAACAAGATAAACCGGCAGGTGACCTTCTCCAAGCGGCGGAACGGGCTGCTCAAGAAGGCGCACGAGATCTCCGTGCTCTGCGACGCTGAGGTTGCGCTCATCGTCTTCTCCACCAAGGGCAAGCTCTACGAGTACTCTAGCCAAGCTAGTAATATGGAAGGGATTCTTGATCGTTACCAGCGTTACTCATTTGAAGAGAGAGCTGTACTGGATCCAAATATTAAAAACCAGGCAAATTGGGGAGATGAATATGGAAGGTTAAAAACCAAACTCGAAGCACTTCAGAAGAGTCAAAGGCAACTCTCAGGTGAACAATTAGACGCACTGACCATAAAAGAACTCCAACAATTGGAACAACAACTCGACAGTTCTTTGAAGCGCATAAGATCAAGAAAGAATCAGCTTCTGTTTGATTCAATATCTGAGCTTCAGAAGAAGGAGAAGTCACTTACTGATCAGAATGGTCAACTGCAAAAGCACCTCGTGGAAACAGGGAAAGAGAAAGAGAACAATAATGCTTTATTCAATACTCATCACCGGGAGCAGCCAAATGGAGCAACAACAAGCTCACCTTCACCTACAGCAGTAACGGTTCCAGATTCCATGCCGACTCTAAATATTGGGTCATATCAATCTAGAGGAGCAGGAGGGGAGGCAGAACCTCAACCGTCCCCGGCACAAGTAAACAGCGGCAAGCTGCCACCATGGATGCTACGCTGTGTCAATAACAACACA
Copy to clipboard
BLAST search against this genome or other genomes in database  
Downstream 1000 bp region from PH01000306G0610 gene.
AGATGGGGCGAGAGGTGGTATGGCAAACCTGGGGTGGTTTTGCGTGCGACGCTGTCGTGTTTTGATTGGCCAGAGGGGCCTCGGGGCGACGTGGACGGCTTCGCGCCGTTCGATCGGGAGAGAGGTCGTTATTGCGACCCAGGTGGGTGTGGGTCCGCGGCGCGAGTGCACCCGCGCCCGTGTGCGGGTCGTGGCACGCGGGGCGGGGGTTGGTCGCTGGGAAAGGTAGGGCCAAGCGGGGTGTGACCGGGGTGGTGTGGCTCCGCGGTGCAAAAAGTTTTCTTTTGCCTTGCTTCAGGGCTCGGTGTGGTCCGTCACCGTCAGTCCGTGGCTGTCGGGTACGGAATCGGCTCACCCAGGGACACCTCATCGTGTAGGGTGCAGGCCGAATCAGCCCGTAACACGTGTCCTGTTAGCCCCACCCAGTCAATGGTGGTCACATTATCTCTGATTACAATTAAAATTGATCAAAACAGCTAAATTATCTCATGAAAATCAGGTAACTAATAGTTTCACCCACTCAAAACAATCTTCCCGGGCGAGGAGTAATCCCTCGTCCTATCTTTGGATCTAGAAGAGCCATTGGAGTGCACGGGAAGTAAAATAGTACGGCAGAAGTTCTAGTCCAGCGTTCGCCTTCATCAAGCATGTTGTGCCGTGAATTGCTCTCTGTAAAATATGTAACTTTTGATATAACACTCTACCTTAGCTTGTCTTTCATTGTTAGAAATCCAAGCTCATGGATTTGTTACTGATTTTTTTTCTTTGTTTTAGTTCTGAAATTGAATGTGGACTTACCGACGAATTTTTTTTTATTAATTAACTTTTATTAATTTTTATTTTAAAGCTAAACAAACTTTATTTCTAATTCTGACCCTTTTGGTCACGCCACTACTCATGACGTAATAAATCAATATTGTCACGTCAGAGGATAAGTCTCCAAATAGCACTTTTAGTCACACCACCACCCATGGCGTTACCAAATCGCACTGTCACACTAT
Copy to clipboard
BLAST search against this genome or other genomes in database  
Need more than 1000 bp? Try sequence retrieval tool or view intergenic regions in GBrowse.
Scaffold PH01000306 Download
Protein sequence
Protein sequence
MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDAEVALIVFSTKGKLYEYSSQASNMEGILDRYQRYSFEERAVLDPNIKNQANWGDEYGRLKTKLEALQKSQRQLSGEQLDALTIKELQQLEQQLDSSLKRIRSRKNQLLFDSISELQKKEKSLTDQNGQLQKHLVETGKEKENNNALFNTHHREQPNGATTSSPSPTAVTVPDSMPTLNIGSYQSRGAGGEAEPQPSPAQVNSGKLPPWMLRCVNNNT
Copy to clipboard
BLAST search against this genome or other genomes in database  
 

* This site recommends the best viewd with 1024x768 in IE8 or above