Hb_005628_050

Information

Type rubber biosynthesis
Description Gene Name: 1-deoxy-D-xylulose-5-phosphate synthase
Location Contig5628: 85978-89459
Sequence    

Annotation

kegg
ID rcu:RCOM_0025610
description 1-deoxyxylulose-5-phosphate synthase, putative (EC:2.2.1.7)
nr
ID XP_002533688.1
description 1-deoxyxylulose-5-phosphate synthase, putative [Ricinus communis]
swissprot
ID Q6YU51
description Probable 1-deoxy-D-xylulose-5-phosphate synthase 2, chloroplastic OS=Oryza sativa subsp. japonica GN=Os07g0190000 PE=2 SV=1
trembl
ID B9T619
description 1-deoxyxylulose-5-phosphate synthase, putative OS=Ricinus communis GN=RCOM_0025610 PE=3 SV=1
Gene Ontology
ID GO:0008661
description probable 1-deoxy-d-xylulose-5-phosphate synthase chloroplastic

Full-length cDNA clone information

cDNA+EST
(Sanger&Illumina)
(ID:Location)		 PASA_asmbl_48876: 86031-89386 , PASA_asmbl_48877: 87743-87864
cDNA
(Sanger)
(ID:Location)		 -

Similar expressed genes (Top20)


Rank Gene Score (JSD) Function Description NCBI(nr) information
1 Hb_005628_050 0.0 rubber biosynthesis Gene Name: 1-deoxy-D-xylulose-5-phosphate synthase 1-deoxyxylulose-5-phosphate synthase, putative [Ricinus communis]
2 Hb_000031_160 0.1036569335 transcription factor TF Family: WRKY PREDICTED: probable WRKY transcription factor 17 [Jatropha curcas]
3 Hb_001832_240 0.1049719822 - - PREDICTED: venom phosphodiesterase 2 [Jatropha curcas]
4 Hb_000382_030 0.105325699 transcription factor TF Family: bHLH hypothetical protein POPTR_0018s11800g [Populus trichocarpa]
5 Hb_001377_130 0.1116714346 - - PREDICTED: cyclic nucleotide-gated ion channel 1-like [Jatropha curcas]
6 Hb_000598_020 0.112761834 - - PREDICTED: PRA1 family protein F2-like [Jatropha curcas]
7 Hb_000417_120 0.1142310755 - - PREDICTED: probable LRR receptor-like serine/threonine-protein kinase At2g24230 [Jatropha curcas]
8 Hb_003680_250 0.1174716056 - - PREDICTED: probable 3-deoxy-D-manno-octulosonic acid transferase, mitochondrial isoform X2 [Jatropha curcas]
9 Hb_001619_020 0.1180520796 - - LRR receptor-like kinase family protein [Medicago truncatula]
10 Hb_000001_010 0.121874699 - - PREDICTED: uncharacterized protein LOC105648961 [Jatropha curcas]
11 Hb_042098_010 0.1290761746 - - 12-oxophytodienoate reductase 2 [Theobroma cacao]
12 Hb_000046_590 0.1290944596 - - Flavonol synthase/flavanone 3-hydroxylase, putative [Ricinus communis]
13 Hb_000237_070 0.1326170977 - - Purple acid phosphatase precursor, putative [Ricinus communis]
14 Hb_005649_010 0.1330706391 - - PREDICTED: exocyst complex component EXO70B1 [Jatropha curcas]
15 Hb_005867_030 0.1335139602 - - PREDICTED: uncharacterized protein At4g00950 [Jatropha curcas]
16 Hb_187991_010 0.1337699842 - - hypothetical protein JCGZ_23771 [Jatropha curcas]
17 Hb_043987_010 0.138497539 - - glutathione s-transferase, putative [Ricinus communis]
18 Hb_008080_030 0.1396378265 - - hypothetical protein POPTR_0275s002101g, partial [Populus trichocarpa]
19 Hb_001141_210 0.1443689435 transcription factor TF Family: GNAT PREDICTED: uncharacterized protein LOC105632009 [Jatropha curcas]
20 Hb_002871_050 0.1446001117 transcription factor TF Family: ARF auxin response factor 1 family protein [Populus trichocarpa]

Gene co-expression network

sample Hb_005628_050 Hb_005628_050 Hb_000031_160 Hb_000031_160 Hb_005628_050--Hb_000031_160 Hb_001832_240 Hb_001832_240 Hb_005628_050--Hb_001832_240 Hb_000382_030 Hb_000382_030 Hb_005628_050--Hb_000382_030 Hb_001377_130 Hb_001377_130 Hb_005628_050--Hb_001377_130 Hb_000598_020 Hb_000598_020 Hb_005628_050--Hb_000598_020 Hb_000417_120 Hb_000417_120 Hb_005628_050--Hb_000417_120 Hb_001619_020 Hb_001619_020 Hb_000031_160--Hb_001619_020 Hb_001141_210 Hb_001141_210 Hb_000031_160--Hb_001141_210 Hb_005814_010 Hb_005814_010 Hb_000031_160--Hb_005814_010 Hb_004785_160 Hb_004785_160 Hb_000031_160--Hb_004785_160 Hb_001635_230 Hb_001635_230 Hb_000031_160--Hb_001635_230 Hb_008080_030 Hb_008080_030 Hb_001832_240--Hb_008080_030 Hb_002871_050 Hb_002871_050 Hb_001832_240--Hb_002871_050 Hb_000046_590 Hb_000046_590 Hb_001832_240--Hb_000046_590 Hb_001454_290 Hb_001454_290 Hb_001832_240--Hb_001454_290 Hb_003881_020 Hb_003881_020 Hb_001832_240--Hb_003881_020 Hb_000382_030--Hb_001377_130 Hb_000237_070 Hb_000237_070 Hb_000382_030--Hb_000237_070 Hb_000318_050 Hb_000318_050 Hb_000382_030--Hb_000318_050 Hb_000085_220 Hb_000085_220 Hb_000382_030--Hb_000085_220 Hb_031862_020 Hb_031862_020 Hb_000382_030--Hb_031862_020 Hb_001123_170 Hb_001123_170 Hb_000382_030--Hb_001123_170 Hb_001377_130--Hb_001123_170 Hb_001377_130--Hb_000237_070 Hb_001377_130--Hb_000318_050 Hb_001538_050 Hb_001538_050 Hb_001377_130--Hb_001538_050 Hb_000598_020--Hb_000417_120 Hb_000075_110 Hb_000075_110 Hb_000598_020--Hb_000075_110 Hb_000771_030 Hb_000771_030 Hb_000598_020--Hb_000771_030 Hb_000110_030 Hb_000110_030 Hb_000598_020--Hb_000110_030 Hb_165404_010 Hb_165404_010 Hb_000598_020--Hb_165404_010 Hb_000417_120--Hb_000771_030 Hb_065230_010 Hb_065230_010 Hb_000417_120--Hb_065230_010 Hb_000417_120--Hb_000382_030 Hb_000417_120--Hb_000237_070 Hb_000417_120--Hb_000075_110
Green: transcription factors, Orange: rubber biosynthesis, Blue: desease resistance

Expression pattern by RNA-Seq analysis

RRIM600_Latex RRIM600_Bark RRIM600_Leaf RRIM600_Petiole PB350_Latex RRIM901_Latex
0.0660365 14.3497 14.2197 6.51472 0.0285769 0.0681546
RRII105_Latex_C RRII105_Latex_S RRIM928_Latex RRIM928_Bark RRIM928_Leaf
0.167381 0.118541 0 10.1014 2.60658

CAGE analysis