gene PH01172955G0010
Feature Overview
Species moso bamboo (Phyllostachys edulis) Feature type gene
Genomic location PH01172955:22 - 672(- stand)   Name
Alternate name Locus tag PH01172955G0010
Length of gene 651  bp Length of CDS 480  bp
Product information
Feature type
CDS
Product name
hsp20/alpha crystallin family protein
Alternate name
HSP20
Molecular weight
(predicted)
17415.2722199999  kDa
Isoeletric point
(predicted)
5.95562362670898
Length
159  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
PH02SNP00027340 PH01172955:278 C C->T
PH02SNP00091560 PH01172955:278 C C->T
Ortholog Groups (determined by OrthoMCL algorithm)
Group ID from orthomcl DB Counts Members of moso bamboo in this ortholog group
OG5_155411 3
Please click OG5_155411 (Group ID from orthoMCL DB) to find more information of orthologs in other species in this ortholog group, which represented species-specific gene expansion families in most of eukaryotic species.
Comparative genomics
Best arabidopsis hit
(using TAIR10)
Gene ID Short description Curator summary Computational description E-value
AT5G12020.1
17.6 kDa class II heat shock protein
17.6 kDa class II heat shock protein (HSP17.6II); CONTAINS InterPro DOMAIN/s: Heat shock protein Hsp20 (InterPro:IPR002068), HSP20-like chaperone (InterPro:IPR008978); BEST Arabidopsis thaliana protein match is: heat shock protein 17.6A (TAIR:AT5G12030.1)
4E-57
Best rice hit
(using MSU7)
Gene ID Product description E-value
LOC_Os01g08860.1 hsp20/alpha crystallin family protein, putative, expressed 6E-74
 
Function (determined by interpro in EMBL-EBI)
Protein family membership

None predicted.

Domains and repeats
  1. Domain
1 20 40 60 80 100 120 140 159
Detailed signature matches
    1. SSF49764 (HSP20-lik...)
    1. PS01031 (HSP20)
    2. PF00011 (HSP20)
Unintegrated signatures no IPR
Unintegrated signatures
  1. PTHR11527 (SMALL HE...)
GO term prediction

Biological Process

None predicted.

Molecular Function

None predicted.

Cellular Component

None predicted.

You may use PPI function to find protein-protein interactions network about moso bamboo.
Pathways (All the pathways are obtained from KEGG)
KEGG orthology Functional Subsystem Pathway
Genetic Information Processing Folding, sorting and degradation Protein processing in endoplasmic reticulum  
You may use Pathway function to find more information for detail.
Reactions (All the pathways are obtained from KEGG)
ID for KEGG orthology Reaction description EC number
K13993 HSP20 family protein
Structure features (determined by CDD in NCBI)
Conserved domain models
Type PSSM-ID Start Stop E value Accession Short name Superfamily Incomplete ?
specific 107221 54 140 1.02E-28 cd06464 ACD_sHsps-like cl00175 -
superfamily 241659 54 140 1.02E-28 cl00175 alpha-crystallin-Hsps_p23-like superfamily - -
non-specific 215655 54 140 3.19E-33 pfam00011 HSP20 cl00175 -
non-specific 107229 54 140 2.95E-26 cd06472 ACD_ScHsp26_like cl00175 -
non-specific 107219 55 140 1.78E-17 cd00298 ACD_sHsps_p23-like cl00175 -
non-specific 107228 53 140 1.02E-16 cd06471 ACD_LpsHSP_like cl00175 -
non-specific 107247 75 140 5.43E-11 cd06526 metazoan_ACD cl00175 N
non-specific 107227 62 138 1.32E-05 cd06470 ACD_IbpA-B_like cl00175 -
non-specific 107236 56 123 0.00507359 cd06481 ACD_HspB9_like cl00175 C
multi-dom 223149 42 141 4.90E-20 COG0071 IbpA - N
Conserved sites/feature
Type Brief name Coordinates Complete size Mapped size Source domain
specific putative dimer interface D54,V55,K56,E57,L58,V65,D67,P69,G70,R114,G134,V135 12 12 107221
 
DNA sequence
Upstream 1000 bp region from PH01172955G0010 gene.
AGATGAGCAGAGATTTATTGA
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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
ATGGAGGGCAGGATGTTCGGGCTGGAGACGCCGCTGATGACGGCGCTGCAGCACCTGCTGGACATCCCTGACGGCGAGTTTGCCGGCGGCGACAAGGCCGCGGGCGGGCCCACGCGCGCCTACGTCCGCGACGCGCGCGCCATGGCCGCCACCCCGGCCGACGTGAAGGAGCTGCCGGGCGCCTACGCTTTCGTGGTGGACATGCCGGGGCTCGGGTCGGGCGACATCAAGGTGCAGGTGGAGGGCGAGAGGGTGCTGGTGATCGGCGGCGAGCGGCGGAGGGAGGAGAAGGAGGACGCCAAGTACCTGCGGATGGAGCGCCGGATGGGCAACTTCATGCGCAAGTTCGTGCTGCCGGAGAACGCCGACATGGACAAGATCTCCGCCGTGTGCCGGGACGGCGTGCTCACCGTCACCGTCGACAAGCTGCCGCCGCCGGAGCCCAAGAAGCCCAAGACCATCGAGGTCAAGGTTGCCTGA
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BLAST search against this genome or other genomes in database  
Downstream 1000 bp region from PH01172955G0010 gene.
CTCACCCTCTGATCTTAGAGAGAATCTCTCTGGTTTTGGTT
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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 PH01172955 Download
Protein sequence
Protein sequence
MEGRMFGLETPLMTALQHLLDIPDGEFAGGDKAAGGPTRAYVRDARAMAATPADVKELPGAYAFVVDMPGLGSGDIKVQVEGERVLVIGGERRREEKEDAKYLRMERRMGNFMRKFVLPENADMDKISAVCRDGVLTVTVDKLPPPEPKKPKTIEVKVA
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BLAST search against this genome or other genomes in database  
 

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