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An organized view of the transcripome



Library:15615 (dbEST ID)

WS-X-N-A-9

Library Description

Organism:Picea glauca
Cultivar:PG-29
Sex:Hermaphrodite
Organ:Outer xylem from 25 year old trees harvested at Kalamalka Research Station in Vernon, British Columbia in 2001
Tissue:Early season xylem harvested June 15th, mid season xylem harvested July 10th and late season xylem harvested August 17th
Vector:pBluescript II SK (+) XR
Cloning site 1:EcoRI (5' end of cDNA)
Cloning site 2:XhoI (3' end of cDNA)
Lab host:E. coli DH10B cells

mRNA was isolated from each tissue source independently and equal quantities of mRNA from each tissue were then pooled. cDNA was prepared from 5 micrograms of mRNA and directionally ligated into the pBluescript II SK (+) XR vector using the pBluescript II XR cDNA Library Construction Kit according to manufacturer's instructions with modifications (Stratagene). Plasmid DNA was then transformed by electroporation into DH10B cells (Invitrogen) for propagation. Normalization was applied according to published methods [Bonaldo M.F. et al. (1996) Genome Research 6(9):791] in order to reduce the abundance of highly expressed transcripts.

Source: Joerg Bohlmann, University of British Columbia

Gene Content Analysis

8,104 ESTs from this library were grouped into 5,736 UniGene entries (putative genes) [UniGene build #15, 17-Oct-2011]. EST counts for each entry may be used to calculate an approximate expression level in transcripts per million (TPM).

ESTs TPM   UniGene Entry
12 1481 Pgl.7036 Clone GQ03716_J06 mRNA sequence.
12 1481 Pgl.4835 Clone GQ0046_J03 mRNA sequence.
11 1357 Pgl.26085 Clone GQ02806_E08 mRNA sequence.
9 1111 Pgl.26345 Clone GQ03010_L19 mRNA sequence.
7 864 Pgl.961 Clone GQ03121_D21 mRNA sequence.
7 864 Pgl.6839 Clone GQ03819_C01 mRNA sequence.
7 864 Pgl.510 Clone GQ02511_A17 mRNA sequence.
7 864 Pgl.4738 Clone GQ03008_F09 mRNA sequence.
7 864 Pgl.1996 Transcribed locus, weakly similar to NP_188636.2 aspartyl protease family protein [Arabidopsis thaliana].
7 864 Pgl.189 Clone GQ02510_G12 mRNA sequence.
7 864 Pgl.1871 Clone GQ02819_A14 mRNA sequence.
6 740 Pgl.997 Clone GQ0185_F03 mRNA sequence.
6 740 Pgl.929 Clone GQ03404_G02 mRNA sequence.
6 740 Pgl.7127 Clone GQ00411_O06 mRNA sequence.
6 740 Pgl.537 Clone GQ03915_M04 mRNA sequence.
6 740 Pgl.4911 Clone GQ0222_F19 mRNA sequence.
6 740 Pgl.4559 Clone GQ03123_K22 mRNA sequence.
6 740 Pgl.4551 Clone GQ03601_O15 mRNA sequence.
6 740 Pgl.4472 Clone GQ03012_G22 mRNA sequence.
6 740 Pgl.3354 Clone GQ03219_E08 mRNA sequence.
6 740 Pgl.3353 Clone GQ04006_A02 mRNA sequence.
6 740 Pgl.311 Clone GQ03011_H03 mRNA sequence.
6 740 Pgl.300 Clone GQ03008_J10 mRNA sequence.
6 740 Pgl.2289 Clone GQ03005_C12 mRNA sequence.
6 740 Pgl.209 Clone GQ03010_J23 mRNA sequence.
6 740 Pgl.1627 Clone GQ02905_K24 mRNA sequence.
6 740 Pgl.1271 Clone GQ0013_K01 mRNA sequence.
5 617 Pgl.9 Clone GQ03107_N24 mRNA sequence.
5 617 Pgl.642 Clone GQ02908_O20 mRNA sequence.
5 617 Pgl.5669 Clone GQ03818_K15 mRNA sequence.
5 617 Pgl.5153 Clone GQ03805_O03 mRNA sequence.
5 617 Pgl.4920 Clone GQ03002_I14 mRNA sequence.
5 617 Pgl.4890 Clone GQ02908_D23 mRNA sequence.
5 617 Pgl.4852 Clone GQ02820_E23 mRNA sequence.
5 617 Pgl.4833 Clone GQ03115_D08 mRNA sequence.
5 617 Pgl.4779 Clone GQ03104_P02 mRNA sequence.
5 617 Pgl.4771 Clone GQ03005_N15 mRNA sequence.
5 617 Pgl.4762 Clone GQ03416_D03 mRNA sequence.
5 617 Pgl.4748 Clone GQ04113_N08 mRNA sequence.
5 617 Pgl.4555 Clone GQ0227_C24 mRNA sequence.
5 617 Pgl.4532 Clone GQ03322_B06 mRNA sequence.
5 617 Pgl.4525 Clone GQ02011_J04 mRNA sequence.
5 617 Pgl.4516 Clone GQ02804_O09 mRNA sequence.
5 617 Pgl.4514 Clone GQ03101_B24 mRNA sequence.
5 617 Pgl.442 Clone GQ03418_O08 mRNA sequence.
5 617 Pgl.4277 Clone GQ02908_M11 mRNA sequence.
5 617 Pgl.4275 Clone GQ03605_K06 mRNA sequence.
5 617 Pgl.4220 Clone GQ03007_B11 mRNA sequence.
5 617 Pgl.4 Transcribed locus, moderately similar to NP_173557.2 thioredoxin-like protein [Arabidopsis thaliana].
5 617 Pgl.390 Clone GQ02906_A13 mRNA sequence.
5 617 Pgl.3463 Clone GQ03818_K09 mRNA sequence.
5 617 Pgl.3335 Clone GQ0082_G01 mRNA sequence.
5 617 Pgl.2791 Clone GQ03814_D13 mRNA sequence.
5 617 Pgl.2782 Clone GQ00411_E18 mRNA sequence.
5 617 Pgl.26096 Clone GQ01309_M20 mRNA sequence.
5 617 Pgl.25047 Clone GQ03230_G24 mRNA sequence.
5 617 Pgl.224 Clone GQ03107_P04 mRNA sequence.
5 617 Pgl.2199 Clone GQ04109_B01 mRNA sequence.
5 617 Pgl.20432 Clone GQ03012_O05 mRNA sequence.
5 617 Pgl.1993 Clone GQ02830_E16 mRNA sequence.
5 617 Pgl.1844 Clone GQ02903_D24 mRNA sequence.
5 617 Pgl.17166 Clone GQ02821_E20 mRNA sequence.
5 617 Pgl.1569 Clone GQ03718_C19 mRNA sequence.
5 617 Pgl.1559 Clone GQ03120_C21 mRNA sequence.
5 617 Pgl.1362 Clone GQ03308_H07 mRNA sequence.
5 617 Pgl.11215 Clone GQ03219_D17 mRNA sequence.
5 617 Pgl.10897 Clone GQ03211_B13 mRNA sequence.
5 617 Pgl.1004 Clone GQ0198_O05 mRNA sequence.
4 494 Pgl.9904 Clone GQ03211_H23 mRNA sequence.
4 494 Pgl.9488 Clone GQ02906_M17 mRNA sequence.
4 494 Pgl.9424 Clone GQ04013_C19 mRNA sequence.
4 494 Pgl.92 Transcribed locus, strongly similar to NP_001058752.1 Os07g0114400 [Oryza sativa Japonica Group].
4 494 Pgl.908 Clone GQ0011_B21 mRNA sequence.
4 494 Pgl.891 Clone GQ02908_O10 mRNA sequence.
4 494 Pgl.89 Clone GQ0206_K16 mRNA sequence.
4 494 Pgl.804 Clone GQ03010_A06 mRNA sequence.
4 494 Pgl.8 Clone GQ02908_I08 mRNA sequence.
4 494 Pgl.787 Clone GQ02904_A09 mRNA sequence.
4 494 Pgl.724 Clone GQ03612_C08 mRNA sequence.
4 494 Pgl.715 Transcribed locus, weakly similar to XP_001770015.1 predicted protein [Physcomitrella patens subsp. patens].
4 494 Pgl.7085 Clone GQ03220_K17 mRNA sequence.
4 494 Pgl.704 Clone GQ0067_I17 mRNA sequence.
4 494 Pgl.6994 Transcribed locus, strongly similar to NP_175831.1 protein translation factor SUI1-2 [Arabidopsis thaliana].
4 494 Pgl.6762 Transcribed locus, strongly similar to XP_002488951.1 hypothetical protein SORBIDRAFT_1292s002010 [Sorghum bicolor].
4 494 Pgl.6660 Clone GQ03711_K15 mRNA sequence.
4 494 Pgl.6659 Clone GQ03716_G07 mRNA sequence.
4 494 Pgl.6486 Clone GQ03814_P23 mRNA sequence.
4 494 Pgl.6480 Clone GQ03615_A12 mRNA sequence.
4 494 Pgl.6228 Clone GQ03013_D24 mRNA sequence.
4 494 Pgl.6198 Clone GQ03110_B21 mRNA sequence.
4 494 Pgl.614 Clone GQ04003_E07 mRNA sequence.
4 494 Pgl.602 Clone GQ02904_P02 mRNA sequence.
4 494 Pgl.592 Clone GQ0071_B07 mRNA sequence.
4 494 Pgl.5813 Clone GQ03010_I04 mRNA sequence.
4 494 Pgl.561 Clone GQ03006_D16 mRNA sequence.
4 494 Pgl.5445 Clone GQ03002_P05 mRNA sequence.
4 494 Pgl.5285 Clone GQ03126_L08 mRNA sequence.
4 494 Pgl.511 Clone GQ03232_J23 mRNA sequence.
4 494 Pgl.5066 Clone GQ02906_M07 mRNA sequence.
4 494 Pgl.5035 Clone GQ0063_A05 mRNA sequence.

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Source: NCBI UniGene

EST Sequences

14,152 EST sequences from this library have been submitted to the public sequence database as of 17-Oct-2011.

Source: NCBI GenBank

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

Keywords

  • stem
  • mature
  • hermaphrodite
  • normalized
  • directionally cloned

Source: NCBI Clone Registry



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