Hb_000001_040

Information

Type -
Description -
Location Contig1: 83567-83764
Sequence    

Annotation

kegg
ID rcu:RCOM_0687370
description ribosomal protein S28, putative
nr
ID CDP04901.1
description unnamed protein product [Coffea canephora]
swissprot
ID P46302
description 40S ribosomal protein S28 OS=Zea mays GN=RPS28 PE=3 SV=1
trembl
ID A0A068U8S9
description Coffea canephora DH200=94 genomic scaffold, scaffold_14 OS=Coffea canephora GN=GSCOC_T00019765001 PE=3 SV=1
Gene Ontology
ID GO:0005840
description 40s ribosomal protein s28

Full-length cDNA clone information

cDNA+EST
(Sanger&Illumina)
(ID:Location)		 PASA_asmbl_00106: 82803-84185 , PASA_asmbl_00107: 82920-83422
cDNA
(Sanger)
(ID:Location)		 003_M02.ab1: 82803-83954 , 007_P21.ab1: 82819-84017 , 016_C22.ab1: 82803-83954 , 019_O01.ab1: 82803-83954 , 020_C16.ab1: 82813-83917 , 027_C17.ab1: 82813-83954 , 027_E16.ab1: 82803-84022 , 029_N01.ab1: 82803-84022 , 030_H09.ab1: 82803-83954 , 034_O20.ab1: 82803-83954 , 043_D08.ab1: 82803-83919 , 052_O12.ab1: 82803-83919 , 053_L13.ab1: 82803-83919

Similar expressed genes (Top20)


Rank Gene Score (JSD) Function Description NCBI(nr) information
1 Hb_000001_040 0.0 - - unnamed protein product [Coffea canephora]
2 Hb_000265_130 0.0840761714 - - -
3 Hb_106005_010 0.115951623 - - EG5651 [Manihot esculenta]
4 Hb_007188_020 0.1231261694 - - hypothetical protein PRUPE_ppb010436mg [Prunus persica]
5 Hb_000176_120 0.1243800615 - - seryl-tRNA synthetase, putative [Ricinus communis]
6 Hb_004117_180 0.1256871951 - - -
7 Hb_003581_010 0.1264008968 - - hypothetical protein VITISV_004687 [Vitis vinifera]
8 Hb_010504_030 0.1302706613 - - calmodulin homolog {EST} [Brassica napus, Naehan, root, Peptide Partial, 53 aa]
9 Hb_136731_010 0.1303430495 - - PREDICTED: uncharacterized protein LOC105628378 isoform X4 [Jatropha curcas]
10 Hb_056199_010 0.1338222874 - - PREDICTED: DNA-directed RNA polymerase V subunit 7-like [Populus euphratica]
11 Hb_005367_010 0.1368606378 - - -
12 Hb_005054_070 0.1382579634 - - unnamed protein product [Vitis vinifera]
13 Hb_166480_010 0.1423870241 - - PREDICTED: peptidyl-tRNA hydrolase, mitochondrial-like [Cucumis melo]
14 Hb_000261_360 0.1436358685 - - unknown [Lotus japonicus]
15 Hb_152554_010 0.1442754 - - hypothetical protein B456_008G095800, partial [Gossypium raimondii]
16 Hb_032927_010 0.1477693407 - - -
17 Hb_005085_030 0.1540386867 - - PREDICTED: N-acetyltransferase 9-like protein isoform X1 [Jatropha curcas]
18 Hb_116632_010 0.1557399798 - - unnamed protein product [Vitis vinifera]
19 Hb_000608_180 0.1562725333 - - PREDICTED: putative 4-hydroxy-4-methyl-2-oxoglutarate aldolase 2 [Tarenaya hassleriana]
20 Hb_000127_090 0.1593372611 - - conserved hypothetical protein [Ricinus communis]

Gene co-expression network

sample Hb_000001_040 Hb_000001_040 Hb_000265_130 Hb_000265_130 Hb_000001_040--Hb_000265_130 Hb_106005_010 Hb_106005_010 Hb_000001_040--Hb_106005_010 Hb_007188_020 Hb_007188_020 Hb_000001_040--Hb_007188_020 Hb_000176_120 Hb_000176_120 Hb_000001_040--Hb_000176_120 Hb_004117_180 Hb_004117_180 Hb_000001_040--Hb_004117_180 Hb_003581_010 Hb_003581_010 Hb_000001_040--Hb_003581_010 Hb_000261_360 Hb_000261_360 Hb_000265_130--Hb_000261_360 Hb_010504_030 Hb_010504_030 Hb_000265_130--Hb_010504_030 Hb_000265_130--Hb_003581_010 Hb_000265_130--Hb_000176_120 Hb_000265_130--Hb_007188_020 Hb_005731_140 Hb_005731_140 Hb_106005_010--Hb_005731_140 Hb_005965_010 Hb_005965_010 Hb_106005_010--Hb_005965_010 Hb_002482_060 Hb_002482_060 Hb_106005_010--Hb_002482_060 Hb_106005_010--Hb_007188_020 Hb_136731_010 Hb_136731_010 Hb_106005_010--Hb_136731_010 Hb_152554_010 Hb_152554_010 Hb_007188_020--Hb_152554_010 Hb_116632_010 Hb_116632_010 Hb_007188_020--Hb_116632_010 Hb_032927_010 Hb_032927_010 Hb_007188_020--Hb_032927_010 Hb_000812_040 Hb_000812_040 Hb_007188_020--Hb_000812_040 Hb_005085_030 Hb_005085_030 Hb_007188_020--Hb_005085_030 Hb_005054_070 Hb_005054_070 Hb_000176_120--Hb_005054_070 Hb_006487_060 Hb_006487_060 Hb_000176_120--Hb_006487_060 Hb_000176_120--Hb_152554_010 Hb_000176_120--Hb_010504_030 Hb_000176_120--Hb_136731_010 Hb_000193_350 Hb_000193_350 Hb_004117_180--Hb_000193_350 Hb_011016_090 Hb_011016_090 Hb_004117_180--Hb_011016_090 Hb_011174_010 Hb_011174_010 Hb_004117_180--Hb_011174_010 Hb_000101_090 Hb_000101_090 Hb_004117_180--Hb_000101_090 Hb_102156_010 Hb_102156_010 Hb_004117_180--Hb_102156_010 Hb_002272_260 Hb_002272_260 Hb_004117_180--Hb_002272_260 Hb_168737_010 Hb_168737_010 Hb_003581_010--Hb_168737_010 Hb_128998_010 Hb_128998_010 Hb_003581_010--Hb_128998_010 Hb_000007_460 Hb_000007_460 Hb_003581_010--Hb_000007_460 Hb_003581_010--Hb_116632_010
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
3321.45 745.087 851.83 5078.66 2468.71 19266.1
RRII105_Latex_C RRII105_Latex_S RRIM928_Latex RRIM928_Bark RRIM928_Leaf
5858.85 7129.37 1709.44 2322.81 220.427

CAGE analysis