Hb_002798_060

Information

Type -
Description -
Location Contig2798: 57712-58296
Sequence    

Annotation

kegg
ID vvi:100260366
description protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 1-like
nr
ID XP_002267312.1
description PREDICTED: protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 1-like [Vitis vinifera]
swissprot
ID Q9LMK2
description Protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 6 OS=Arabidopsis thaliana GN=LSH6 PE=1 SV=1
trembl
ID F6H618
description Putative uncharacterized protein OS=Vitis vinifera GN=VIT_14s0036g00540 PE=4 SV=1
Gene Ontology
ID -
description -

Full-length cDNA clone information

cDNA+EST
(Sanger&Illumina)
(ID:Location)		 PASA_asmbl_29144: 56906-58676
cDNA
(Sanger)
(ID:Location)		 001_K11.ab1: 56906-57634 , 004_H11.ab1: 56961-57747 , 029_O07.ab1: 56958-57541

Similar expressed genes (Top20)


Rank Gene Score (JSD) Function Description NCBI(nr) information
1 Hb_002798_060 0.0 - - PREDICTED: protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 1-like [Vitis vinifera]
2 Hb_004607_150 0.1147715534 - - PREDICTED: serine/threonine-protein kinase UCNL [Jatropha curcas]
3 Hb_009486_190 0.1230844607 - - ATP binding protein, putative [Ricinus communis]
4 Hb_008959_030 0.1362043467 - - PREDICTED: universal stress protein A-like protein [Jatropha curcas]
5 Hb_004012_010 0.1470687601 - - PREDICTED: 40S ribosomal protein S15a-1-like [Gossypium raimondii]
6 Hb_023536_010 0.1491400268 transcription factor TF Family: HB PREDICTED: homeobox protein knotted-1-like 1 [Jatropha curcas]
7 Hb_000599_140 0.1502852816 - - PREDICTED: protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 4-like [Populus euphratica]
8 Hb_000116_470 0.1543033312 - - PREDICTED: AT-hook motif nuclear-localized protein 10-like [Jatropha curcas]
9 Hb_000116_230 0.155993391 - - -
10 Hb_004920_040 0.15623783 - - PREDICTED: probable dimethyladenosine transferase [Jatropha curcas]
11 Hb_002374_490 0.1570630741 - - conserved hypothetical protein [Ricinus communis]
12 Hb_000237_080 0.1575295207 transcription factor TF Family: PHD PREDICTED: chromatin structure-remodeling complex subunit RSC1 [Jatropha curcas]
13 Hb_004055_010 0.1579408014 - - dead box ATP-dependent RNA helicase, putative [Ricinus communis]
14 Hb_000914_090 0.1584614598 - - PREDICTED: uncharacterized protein LOC105648257 [Jatropha curcas]
15 Hb_002909_070 0.1587030878 - - hypothetical protein POPTR_0006s03000g [Populus trichocarpa]
16 Hb_002849_210 0.1607497686 - - protein binding protein, putative [Ricinus communis]
17 Hb_002182_060 0.1607883093 transcription factor TF Family: PHD PREDICTED: histone-lysine N-methyltransferase ATXR6 [Jatropha curcas]
18 Hb_005928_110 0.1610521098 - - PREDICTED: PRA1 family protein F2-like [Jatropha curcas]
19 Hb_002609_280 0.1615349278 - - villin 1-4, putative [Ricinus communis]
20 Hb_000179_050 0.1632225607 - - 40S ribosomal protein S17A [Hevea brasiliensis]

Gene co-expression network

sample Hb_002798_060 Hb_002798_060 Hb_004607_150 Hb_004607_150 Hb_002798_060--Hb_004607_150 Hb_009486_190 Hb_009486_190 Hb_002798_060--Hb_009486_190 Hb_008959_030 Hb_008959_030 Hb_002798_060--Hb_008959_030 Hb_004012_010 Hb_004012_010 Hb_002798_060--Hb_004012_010 Hb_023536_010 Hb_023536_010 Hb_002798_060--Hb_023536_010 Hb_000599_140 Hb_000599_140 Hb_002798_060--Hb_000599_140 Hb_180333_010 Hb_180333_010 Hb_004607_150--Hb_180333_010 Hb_006189_010 Hb_006189_010 Hb_004607_150--Hb_006189_010 Hb_000116_470 Hb_000116_470 Hb_004607_150--Hb_000116_470 Hb_004607_150--Hb_004012_010 Hb_004920_040 Hb_004920_040 Hb_004607_150--Hb_004920_040 Hb_000196_090 Hb_000196_090 Hb_009486_190--Hb_000196_090 Hb_016604_020 Hb_016604_020 Hb_009486_190--Hb_016604_020 Hb_033772_050 Hb_033772_050 Hb_009486_190--Hb_033772_050 Hb_002540_030 Hb_002540_030 Hb_009486_190--Hb_002540_030 Hb_002609_280 Hb_002609_280 Hb_009486_190--Hb_002609_280 Hb_004055_010 Hb_004055_010 Hb_008959_030--Hb_004055_010 Hb_001655_070 Hb_001655_070 Hb_008959_030--Hb_001655_070 Hb_000483_350 Hb_000483_350 Hb_008959_030--Hb_000483_350 Hb_004109_200 Hb_004109_200 Hb_008959_030--Hb_004109_200 Hb_005928_110 Hb_005928_110 Hb_008959_030--Hb_005928_110 Hb_004221_010 Hb_004221_010 Hb_008959_030--Hb_004221_010 Hb_024835_030 Hb_024835_030 Hb_004012_010--Hb_024835_030 Hb_026198_050 Hb_026198_050 Hb_004012_010--Hb_026198_050 Hb_006775_080 Hb_006775_080 Hb_004012_010--Hb_006775_080 Hb_004012_010--Hb_004920_040 Hb_003185_020 Hb_003185_020 Hb_004012_010--Hb_003185_020 Hb_002762_060 Hb_002762_060 Hb_004012_010--Hb_002762_060 Hb_009493_010 Hb_009493_010 Hb_023536_010--Hb_009493_010 Hb_010897_030 Hb_010897_030 Hb_023536_010--Hb_010897_030 Hb_003893_090 Hb_003893_090 Hb_023536_010--Hb_003893_090 Hb_001329_210 Hb_001329_210 Hb_023536_010--Hb_001329_210 Hb_023536_010--Hb_009486_190 Hb_000116_230 Hb_000116_230 Hb_000599_140--Hb_000116_230 Hb_026698_010 Hb_026698_010 Hb_000599_140--Hb_026698_010 Hb_010407_070 Hb_010407_070 Hb_000599_140--Hb_010407_070 Hb_000599_140--Hb_008959_030 Hb_005306_130 Hb_005306_130 Hb_000599_140--Hb_005306_130
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
126.676 105.42 2.22883 45.6532 73.8422 79.7367
RRII105_Latex_C RRII105_Latex_S RRIM928_Latex RRIM928_Bark RRIM928_Leaf
154.902 179.756 107.124 50.9477 0.317678

CAGE analysis