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An organized view of the transcripome



Library:15897 (dbEST ID)

GR__Ea

Library Description

Organism:Gossypium raimondii
Developmental stage:first true leaves
Tissue:whole seedlings
Vector:pCMV.SPORT-6.1
Vector type:Plasmid
Cloning site 1:NotI
Cloning site 2:EcoRV
Lab host:DH10B

Library made by Invitrogen with RNA supplied by Wendle lab. Directional cloned into NotI-EV. Colonies plated/picked by AGI. More glycerol clones held in -80.

Source: Rod A. Wing, The University of Arizona

Gene Content Analysis

9,593 ESTs from this library were grouped into 2,330 UniGene entries (putative genes) [UniGene build #9, 27-Jan-2010]. EST counts for each entry may be used to calculate an approximate expression level in transcripts per million (TPM).

ESTs TPM   UniGene Entry
222 23142 Gra.1108 Transcribed locus, strongly similar to XP_002267414.1 PREDICTED: hypothetical protein [Vitis vinifera].
167 17409 Gra.525 Transcribed locus, strongly similar to XP_002274796.1 PREDICTED: hypothetical protein [Vitis vinifera].
149 15532 Gra.331 Transcribed locus, strongly similar to NP_565787.1 light-harvesting complex II chlorophyll a/b binding protein 1 [Arabidopsis thaliana].
86 8965 Gra.163 Transcribed locus, moderately similar to NP_176880.1 ribulose bisphosphate carboxylase small chain 1A [Arabidopsis thaliana].
85 8861 Gra.645 Transcribed locus, strongly similar to NP_001117276.1 glyceraldehyde-3-phosphate dehydrogenase (NADP+) (phosphorylating) [Arabidopsis thaliana].
68 7089 Gra.2922 Transcribed locus, moderately similar to NP_850491.1 carbonic anhydrase 1 [Arabidopsis thaliana].
64 6672 Gra.1026 Transcribed locus, moderately similar to NP_175293.1 putative phosphoethanolamine N-methyltransferase 2 [Arabidopsis thaliana].
63 6567 Gra.1713 Transcribed locus, strongly similar to XP_002316981.1 predicted protein [Populus trichocarpa].
61 6359 Gra.95 Transcribed locus, strongly similar to NP_195506.1 glycine hydroxymethyltransferase [Arabidopsis thaliana].
54 5629 Gra.401 Transcribed locus, moderately similar to XP_002305639.1 anthocyanidin reductase [Populus trichocarpa].
53 5525 Gra.901 Transcribed locus, moderately similar to NP_564497.1 cysteine proteinase RD21a [Arabidopsis thaliana].
52 5421 Gra.3611 Transcribed locus, strongly similar to XP_002303791.1 light-harvesting complex I protein Lhca2 [Populus trichocarpa].
52 5421 Gra.2794 Transcribed locus, moderately similar to NP_190692.1 Naringenin,2-oxoglutarate 3-dioxygenase [Arabidopsis thaliana].
51 5316 Gra.481 Transcribed locus, moderately similar to NP_850321.1 ribulose bisphosphate carboxylase/oxygenase activase [Arabidopsis thaliana].
51 5316 Gra.323 Transcribed locus, strongly similar to NP_192772.1 chlorophyll a-b binding protein CP26 [Arabidopsis thaliana].
51 5316 Gra.1082 Transcribed locus, moderately similar to NP_850491.1 carbonic anhydrase 1 [Arabidopsis thaliana].
47 4899 Gra.341 Transcribed locus, strongly similar to NP_176347.1 light-harvesting complex I chlorophyll a/b binding protein 3 [Arabidopsis thaliana].
45 4691 Gra.653 Transcribed locus, moderately similar to NP_173034.1 light harvesting complex photosystem II subunit 6 [Arabidopsis thaliana].
45 4691 Gra.313 Transcribed locus, strongly similar to NP_195773.1 chlorophyll a-b binding protein CP29.1 [Arabidopsis thaliana].
44 4587 Gra.802 Transcribed locus, moderately similar to XP_002282039.1 PREDICTED: leucoanthocyanidin dioxygenase [Vitis vinifera].
44 4587 Gra.593 Transcribed locus, strongly similar to NP_565786.1 light-harvesting complex II chlorophyll a/b binding protein 1 [Arabidopsis thaliana].
42 4378 Gra.499 Transcribed locus, strongly similar to XP_002304909.1 predicted protein [Populus trichocarpa].
40 4170 Gra.2810 Transcribed locus, moderately similar to XP_002308621.1 predicted protein [Populus trichocarpa].
38 3961 Gra.661 Transcribed locus, moderately similar to NP_172153.1 oxygen-evolving enhancer protein 2-1 [Arabidopsis thaliana].
38 3961 Gra.241 Transcribed locus, strongly similar to NP_188060.1 putative peroxisomal (S)-2-hydroxy-acid oxidase 2 [Arabidopsis thaliana].
38 3961 Gra.207 Transcribed locus, strongly similar to XP_002303821.1 chalcone synthase [Populus trichocarpa].
38 3961 Gra.1845 Transcribed locus, moderately similar to XP_002306900.1 predicted protein [Populus trichocarpa].
37 3857 Gra.194 Transcribed locus, strongly similar to NP_568049.1 fructose-bisphosphate aldolase, class I [Arabidopsis thaliana].
36 3753 Gra.1497 Transcribed locus, moderately similar to NP_568921.1 thiol protease aleurain [Arabidopsis thaliana].
35 3648 Gra.2508 Transcribed locus, strongly similar to XP_002303821.1 chalcone synthase [Populus trichocarpa].
34 3544 Gra.432 Transcribed locus, strongly similar to XP_002264019.1 PREDICTED: similar to chalcone synthase [Vitis vinifera].
34 3544 Gra.218 Transcribed locus, strongly similar to XP_002274942.1 PREDICTED: hypothetical protein [Vitis vinifera].
32 3336 Gra.209 Transcribed locus, strongly similar to NP_178585.1 photosystem II light harvesting complex protein 2.1 [Arabidopsis thaliana].
30 3127 Gra.2999 Transcribed locus, strongly similar to XP_958803.1 polyubiquitin [Neurospora crassa OR74A].
30 3127 Gra.2124 Transcribed locus, strongly similar to XP_958803.1 polyubiquitin [Neurospora crassa OR74A].
29 3023 Gra.2409 Transcribed locus, moderately similar to NP_001078639.1 glutamine synthetase [Arabidopsis thaliana].
28 2919 Gra.78 Transcribed locus, strongly similar to NP_200847.1 Elongation factor 1-alpha [Arabidopsis thaliana].
28 2919 Gra.2732 Transcribed locus, strongly similar to NP_195027.1 glycine dehydrogenase [decarboxylating] 2 [Arabidopsis thaliana].
27 2815 Gra.311 Transcribed locus, strongly similar to NP_187062.1 glyceraldehyde-3-phosphate dehydrogenase, cytosolic [Arabidopsis thaliana].
27 2815 Gra.2809 Transcribed locus, weakly similar to XP_002271116.1 PREDICTED: lipid transfer protein [Vitis vinifera].
27 2815 Gra.1484 Transcribed locus, strongly similar to NP_171751.1 S-adenosylmethionine synthetase 1 [Arabidopsis thaliana].
25 2606 Gra.315 Transcribed locus, moderately similar to NP_001062631.2 Os09g0133600 [Oryza sativa Japonica Group].
25 2606 Gra.2689 Transcribed locus, strongly similar to NP_174996.1 glyceraldehyde-3-phosphate dehydrogenase B [Arabidopsis thaliana].
25 2606 Gra.1829 Transcribed locus, moderately similar to NP_201420.1 ferredoxin--NADP+ reductase [Arabidopsis thaliana].
22 2293 Gra.605 Transcribed locus, moderately similar to XP_002314004.1 flavonoid 3',5'-hydroxylase [Populus trichocarpa].
22 2293 Gra.3021 Transcribed locus, moderately similar to NP_190318.1 asparagine synthetase [glutamine-hydrolyzing] [Arabidopsis thaliana].
21 2189 Gra.228 Transcribed locus, moderately similar to XP_002308580.1 predicted protein [Populus trichocarpa].
21 2189 Gra.162 Transcribed locus, moderately similar to NP_201420.1 ferredoxin--NADP+ reductase [Arabidopsis thaliana].
21 2189 Gra.1055 Transcribed locus, moderately similar to XP_002325684.1 predicted protein [Populus trichocarpa].
19 1981 Gra.3053 Transcribed locus, strongly similar to XP_002304468.1 predicted protein [Populus trichocarpa].
19 1981 Gra.1126 Transcribed locus, strongly similar to XP_958803.1 polyubiquitin [Neurospora crassa OR74A].
18 1876 Gra.3069 Transcribed locus, moderately similar to NP_196867.1 magnesium chelatase subunit H [Arabidopsis thaliana].
18 1876 Gra.2958 Transcribed locus, strongly similar to NP_001117503.1 phosphoglycerate kinase [Arabidopsis thaliana].
18 1876 Gra.2935 Transcribed locus, moderately similar to NP_172405.1 RNA binding protein [Arabidopsis thaliana].
18 1876 Gra.2882 Transcribed locus, moderately similar to NP_568049.1 fructose-bisphosphate aldolase, class I [Arabidopsis thaliana].
18 1876 Gra.2808 Transcribed locus, moderately similar to XP_002307752.1 predicted protein [Populus trichocarpa].
18 1876 Gra.2747 Transcribed locus, strongly similar to NP_195761.1 Pyridoxal biosynthesis protein PDX1.3 [Arabidopsis thaliana].
18 1876 Gra.2608 Transcribed locus, moderately similar to XP_002283209.1 PREDICTED: hypothetical protein [Vitis vinifera].
18 1876 Gra.2441 Transcribed locus, strongly similar to NP_200230.1 protochlorophyllide reductase A [Arabidopsis thaliana].
18 1876 Gra.2398 Transcribed locus, strongly similar to NP_174486.1 phosphoribulokinase [Arabidopsis thaliana].
18 1876 Gra.2009 Transcribed locus, strongly similar to NP_171751.1 S-adenosylmethionine synthetase 1 [Arabidopsis thaliana].
18 1876 Gra.133 Transcribed locus, strongly similar to XP_002303791.1 light-harvesting complex I protein Lhca2 [Populus trichocarpa].
18 1876 Gra.1322 Transcribed locus, moderately similar to NP_181187.1 fructose-bisphosphate aldolase, class I [Arabidopsis thaliana].
18 1876 Gra.1042 Transcribed locus, strongly similar to NP_190331.3 chlorophyll a-b binding protein 4 [Arabidopsis thaliana].
17 1772 Gra.690 Transcribed locus, strongly similar to NP_200238.1 light-harvesting chlorophyll B-binding protein 3 [Arabidopsis thaliana].
17 1772 Gra.507 Transcribed locus, strongly similar to NP_191253.1 magnesium-protoporphyrin IX monomethyl ester [oxidative] cyclase [Arabidopsis thaliana].
17 1772 Gra.456 Transcribed locus, moderately similar to NP_201203.2 inositol polyphosphate 1-phosphatase [Arabidopsis thaliana].
17 1772 Gra.2991 Transcribed locus, weakly similar to XP_002312978.1 predicted protein [Populus trichocarpa].
17 1772 Gra.2469 Transcribed locus, moderately similar to XP_002284659.1 PREDICTED: hypothetical protein [Vitis vinifera].
17 1772 Gra.1993 Transcribed locus, strongly similar to XP_001691876.1 alpha tubulin 1 [Chlamydomonas reinhardtii].
17 1772 Gra.1858 Transcribed locus, moderately similar to NP_565176.1 14-3-3-like protein GF14 omega [Arabidopsis thaliana].
16 1668 Gra.725 Transcribed locus, moderately similar to XP_002285325.1 PREDICTED: hypothetical protein [Vitis vinifera].
16 1668 Gra.599 Transcribed locus, strongly similar to NP_196528.1 malate dehydrogenase [Arabidopsis thaliana].
16 1668 Gra.2947 Transcribed locus, moderately similar to NP_566880.1 thiol protease aleurain-like protein [Arabidopsis thaliana].
16 1668 Gra.2842 Transcribed locus, weakly similar to NP_201042.2 plant invertase/pectin methylesterase inhibitor domain-containing protein [Arabidopsis thaliana].
16 1668 Gra.2807 Transcribed locus, moderately similar to XP_002300509.1 predicted protein [Populus trichocarpa].
16 1668 Gra.2729 Transcribed locus, moderately similar to XP_002307539.1 predicted protein [Populus trichocarpa].
16 1668 Gra.2691 Transcribed locus, strongly similar to NP_195236.1 aquaporin PIP2-7 [Arabidopsis thaliana].
16 1668 Gra.2551 Transcribed locus, moderately similar to NP_001042028.1 Os01g0149800 [Oryza sativa Japonica Group].
16 1668 Gra.2368 Transcribed locus, moderately similar to XP_002298827.1 predicted protein [Populus trichocarpa].
16 1668 Gra.1041 Transcribed locus, strongly similar to XP_002301067.1 2-dehydro-3-deoxyphosphoheptonate aldolase/ 3-deoxy-d-arabino-heptulosonate 7-phosphate synthetase [Populus trichocarpa].
15 1564 Gra.601 Transcribed locus, moderately similar to NP_181254.1 aquaporin PIP2-2 [Arabidopsis thaliana].
15 1564 Gra.3001 Transcribed locus, moderately similar to NP_568166.1 2-Cys peroxiredoxin BAS1-like protein [Arabidopsis thaliana].
15 1564 Gra.2956 Transcribed locus, strongly similar to XP_002280604.1 PREDICTED: hypothetical protein [Vitis vinifera].
15 1564 Gra.2567 Transcribed locus, moderately similar to NP_566528.1 post-illumination chlorophyll fluorescence increase protein [Arabidopsis thaliana].
15 1564 Gra.2126 Transcribed locus, weakly similar to XP_002312379.1 leucoanthocyanidin reductase [Populus trichocarpa].
15 1564 Gra.1666 Transcribed locus, strongly similar to NP_001031791.1 catalase 2 [Arabidopsis thaliana].
14 1459 Gra.872 Transcribed locus, strongly similar to NP_176968.1 hydroxypyruvate reductase [Arabidopsis thaliana].
14 1459 Gra.3558 Transcribed locus, moderately similar to XP_002312379.1 leucoanthocyanidin reductase [Populus trichocarpa].
14 1459 Gra.3057 Transcribed locus, moderately similar to XP_002275624.1 PREDICTED: hypothetical protein [Vitis vinifera].
14 1459 Gra.301 Transcribed locus, strongly similar to XP_002273346.1 PREDICTED: hypothetical protein [Vitis vinifera].
14 1459 Gra.2961 Transcribed locus, moderately similar to XP_002320487.1 1-aminocyclopropane-1-carboxylate [Populus trichocarpa].
14 1459 Gra.2791 Transcribed locus, strongly similar to NP_172801.1 glyceraldehyde 3-phosphate dehydrogenase [Arabidopsis thaliana].
14 1459 Gra.2780 Transcribed locus, strongly similar to NP_195235.1 catalase 2 [Arabidopsis thaliana].
14 1459 Gra.2631 Transcribed locus, strongly similar to NP_177587.1 geranylgeranyl diphosphate reductase [Arabidopsis thaliana].
14 1459 Gra.2436 Transcribed locus, moderately similar to XP_002317838.1 caffeic acid 3-O-methyltransferase [Populus trichocarpa].
14 1459 Gra.1533 Transcribed locus, strongly similar to XP_002328996.1 predicted protein [Populus trichocarpa].
14 1459 Gra.1016 Transcribed locus, strongly similar to NP_181192.1 bifunctional enolase 2/transcriptional activator [Arabidopsis thaliana].
13 1355 Gra.994 Transcribed locus, weakly similar to NP_181259.1 ribonucleoprotein [Arabidopsis thaliana].
13 1355 Gra.912 Transcribed locus, strongly similar to XP_001691876.1 alpha tubulin 1 [Chlamydomonas reinhardtii].

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Source: NCBI UniGene

EST Sequences

31,153 EST sequences from this library have been submitted to the public sequence database as of 27-Jan-2010.

Source: NCBI GenBank

Click the button to save sequences to a file (FASTA format)

Keywords

  • whole plant
  • seedling

Source: NCBI Clone Registry

References

A global assembly of cotton ESTs. Udall JA, et al., Genome Res 16, 441-450 (2006).



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