Hb_002890_120

Information

Type -
Description -
Location Contig2890: 201725-206598
Sequence    

Annotation

kegg
ID tcc:TCM_027140
description Nucleic acid binding,RNA binding isoform 1
nr
ID XP_007023148.1
description Nucleic acid binding,RNA binding isoform 1 [Theobroma cacao]
swissprot
ID Q6DEY1
description Survival of motor neuron-related-splicing factor 30 OS=Xenopus tropicalis GN=smndc1 PE=2 SV=1
trembl
ID A0A061G7E7
description Nucleic acid binding,RNA binding isoform 1 OS=Theobroma cacao GN=TCM_027140 PE=4 SV=1
Gene Ontology
ID GO:0005634
description survival of motor neuron-related-splicing factor 30

Full-length cDNA clone information

cDNA+EST
(Sanger&Illumina)
(ID:Location)		 PASA_asmbl_30201: 202384-203213 , PASA_asmbl_30203: 204236-204770 , PASA_asmbl_30204: 204984-205270
cDNA
(Sanger)
(ID:Location)		 -

Similar expressed genes (Top20)


Rank Gene Score (JSD) Function Description NCBI(nr) information
1 Hb_002890_120 0.0 - - Nucleic acid binding,RNA binding isoform 1 [Theobroma cacao]
2 Hb_000648_080 0.0655938574 - - PREDICTED: serine/arginine repetitive matrix protein 1 isoform X2 [Populus euphratica]
3 Hb_008103_070 0.0663502294 transcription factor TF Family: MYB-related PREDICTED: telomere repeat-binding factor 4-like [Jatropha curcas]
4 Hb_000236_400 0.0743888553 - - hypothetical protein JCGZ_01058 [Jatropha curcas]
5 Hb_032202_120 0.0792640804 - - PREDICTED: uncharacterized protein LOC105643059 isoform X2 [Jatropha curcas]
6 Hb_000398_020 0.0825355268 - - PREDICTED: superkiller viralicidic activity 2-like 2 isoform X1 [Jatropha curcas]
7 Hb_000710_040 0.0847534299 - - PREDICTED: HEAT repeat-containing protein 6 [Jatropha curcas]
8 Hb_000640_310 0.0861320837 - - hypothetical protein JCGZ_14055 [Jatropha curcas]
9 Hb_002217_430 0.086907024 - - PREDICTED: flowering time control protein FCA isoform X4 [Jatropha curcas]
10 Hb_005588_090 0.0875036226 - - hypothetical protein CICLE_v10003480mg [Citrus clementina]
11 Hb_003943_020 0.0878742025 - - PREDICTED: peptidyl-prolyl cis-trans isomerase PASTICCINO1 isoform X1 [Jatropha curcas]
12 Hb_000011_100 0.0891170663 - - PREDICTED: uncharacterized protein C630.12 [Jatropha curcas]
13 Hb_005289_040 0.0896998435 - - poly(A) polymerase, putative [Ricinus communis]
14 Hb_002374_010 0.0914852839 - - PREDICTED: protein translocase subunit SECA2, chloroplastic [Jatropha curcas]
15 Hb_007558_070 0.0915728435 - - PREDICTED: pre-mRNA-processing factor 39 isoform X2 [Jatropha curcas]
16 Hb_001006_330 0.0924701402 - - sodium/hydrogen exchanger plant, putative [Ricinus communis]
17 Hb_001235_140 0.0926511327 - - PREDICTED: protein arginine N-methyltransferase 1.6 [Jatropha curcas]
18 Hb_000318_120 0.0929732648 transcription factor TF Family: SWI/SNF-BAF60b PREDICTED: DNA ligase 1 isoform X2 [Jatropha curcas]
19 Hb_005333_160 0.0936454364 - - hypothetical protein B456_009G230200 [Gossypium raimondii]
20 Hb_171900_070 0.0941792652 - - -

Gene co-expression network

sample Hb_002890_120 Hb_002890_120 Hb_000648_080 Hb_000648_080 Hb_002890_120--Hb_000648_080 Hb_008103_070 Hb_008103_070 Hb_002890_120--Hb_008103_070 Hb_000236_400 Hb_000236_400 Hb_002890_120--Hb_000236_400 Hb_032202_120 Hb_032202_120 Hb_002890_120--Hb_032202_120 Hb_000398_020 Hb_000398_020 Hb_002890_120--Hb_000398_020 Hb_000710_040 Hb_000710_040 Hb_002890_120--Hb_000710_040 Hb_000648_080--Hb_000398_020 Hb_140049_040 Hb_140049_040 Hb_000648_080--Hb_140049_040 Hb_000640_310 Hb_000640_310 Hb_000648_080--Hb_000640_310 Hb_000406_230 Hb_000406_230 Hb_000648_080--Hb_000406_230 Hb_000264_030 Hb_000264_030 Hb_000648_080--Hb_000264_030 Hb_012753_170 Hb_012753_170 Hb_008103_070--Hb_012753_170 Hb_001433_070 Hb_001433_070 Hb_008103_070--Hb_001433_070 Hb_005588_090 Hb_005588_090 Hb_008103_070--Hb_005588_090 Hb_002175_030 Hb_002175_030 Hb_008103_070--Hb_002175_030 Hb_008103_070--Hb_032202_120 Hb_000236_400--Hb_000710_040 Hb_000236_400--Hb_000648_080 Hb_000236_400--Hb_000398_020 Hb_000011_100 Hb_000011_100 Hb_000236_400--Hb_000011_100 Hb_003943_010 Hb_003943_010 Hb_000236_400--Hb_003943_010 Hb_032202_120--Hb_001433_070 Hb_005289_040 Hb_005289_040 Hb_032202_120--Hb_005289_040 Hb_032202_120--Hb_012753_170 Hb_032202_120--Hb_005588_090 Hb_007558_070 Hb_007558_070 Hb_000398_020--Hb_007558_070 Hb_000398_020--Hb_000406_230 Hb_002000_070 Hb_002000_070 Hb_000398_020--Hb_002000_070 Hb_004976_010 Hb_004976_010 Hb_000398_020--Hb_004976_010 Hb_000710_040--Hb_000011_100 Hb_001089_030 Hb_001089_030 Hb_000710_040--Hb_001089_030 Hb_000227_220 Hb_000227_220 Hb_000710_040--Hb_000227_220 Hb_183510_020 Hb_183510_020 Hb_000710_040--Hb_183510_020 Hb_057688_010 Hb_057688_010 Hb_000710_040--Hb_057688_010 Hb_001430_080 Hb_001430_080 Hb_000710_040--Hb_001430_080
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
8.44922 9.87731 7.97559 5.28037 10.5561 6.9014
RRII105_Latex_C RRII105_Latex_S RRIM928_Latex RRIM928_Bark RRIM928_Leaf
6.4468 7.05536 2.40406 11.3179 6.71814

CAGE analysis