BLASTN 2.2.10 [Oct-19-2004]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 3070703.2.1
(1214 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CO166148.1|CO166148 FLD1_59_E03.g1_A029 Root flooded Pin... 135 5e-030
gb|DR052757.1|DR052757 RTCA1_6_E04.g1_A029 Roots minus calc... 135 5e-030
gb|DR071198.1|DR071198 RTDK1_18_F12.b1_A029 Roots, dark Pin... 129 3e-028
gb|DR057937.1|DR057937 RTNIT1_8_E08.g1_A029 Roots minus nit... 119 3e-025
gb|BX678625.1|BX678625 BX678625 RS Pinus pinaster cDNA clon... 90 3e-016
gb|CO197051.1|CO197051 GEO1_3_C05.g1_A029 Root gravitropism... 82 6e-014
gb|DR693051.1|DR693051 EST1083139 Normalized pine embryo li... 74 1e-011
gb|DT637598.1|DT637598 EST1152529 Normalized pine embryo li... 74 1e-011
gb|CF396564.1|CF396564 RTDS2_22_F11.g1_A021 Drought-stresse... 70 2e-010
gb|BQ696623.1|BQ696623 NXPV_043_D05_F NXPV (Nsf Xylem Plani... 60 2e-007
gb|BE187099.1|BE187099 NXNV_155_F10_F Nsf Xylem Normal wood... 44 0.013
gb|BX253780.1|BX253780 BX253780 Pinus pinaster differenciat... 42 0.053
gb|CO166082.1|CO166082 FLD1_59_E03.b1_A029 Root flooded Pin... 42 0.053
gb|DR057850.1|DR057850 RTNIT1_8_E08.b1_A029 Roots minus nit... 42 0.053
gb|DR071265.1|DR071265 RTDK1_18_F12.g1_A029 Roots, dark Pin... 42 0.053
gb|DR099748.1|DR099748 STRR1_58_E10.b1_A033 Stem Response R... 42 0.053
gb|DR388190.1|DR388190 RTHG1_26_E04.g1_A029 Roots plus adde... 42 0.053
gb|DR745589.1|DR745589 RTCU1_30_F04.g1_A029 Roots plus adde... 42 0.053
gb|BX248935.1|BX248935 BX248935 Pinus pinaster differenciat... 40 0.21
>gb|CO166148.1|CO166148 FLD1_59_E03.g1_A029 Root flooded Pinus taeda cDNA clone
FLD1_59_E03_A029 5', mRNA sequence
Length = 885
Score = 135 bits (68), Expect = 5e-030
Identities = 152/180 (84%)
Strand = Plus / Minus
Query: 1027 actgtcaatgtgttcgatgttatgttgtggtagtacctgagtggctccattgtgctctca 1086
||||||||||| || ||||| ||||| || |||||||| || || || |||||||||||
Sbjct: 825 actgtcaatgtattggatgtaatgttatgatagtacctaagaggatctattgtgctctcg 766
Query: 1087 ccaacataagcaacagcagcaaagtgcataacagcgtcaaatgcattctccgaaaatatt 1146
|| |||||||| |||||||| |||||||| || |||||||||||||| || | |||||||
Sbjct: 765 cccacataagccacagcagcgaagtgcattactgcgtcaaatgcattttctgcaaatatt 706
Query: 1147 ttcttcacagctttggcatcgcctaagtcagcataaataaactgaagccttccgggttct 1206
|| || || |||||| ||| || ||||||||| |||||||||| |||||||| ||||||
Sbjct: 705 ttatttaccgctttgctatcacccaagtcagcacaaataaactgcagccttcccggttct 646
>gb|DR052757.1|DR052757 RTCA1_6_E04.g1_A029 Roots minus calcium Pinus taeda cDNA clone
RTCA1_6_E04_A029 5', mRNA sequence
Length = 805
Score = 135 bits (68), Expect = 5e-030
Identities = 152/180 (84%)
Strand = Plus / Minus
Query: 1027 actgtcaatgtgttcgatgttatgttgtggtagtacctgagtggctccattgtgctctca 1086
||||||||||| || ||||| ||||| || |||||||| || || || |||||||||||
Sbjct: 583 actgtcaatgtattggatgtaatgttatgatagtacctaagaggatctattgtgctctcg 524
Query: 1087 ccaacataagcaacagcagcaaagtgcataacagcgtcaaatgcattctccgaaaatatt 1146
|| |||||||| |||||||| |||||||| || |||||||||||||| || | |||||||
Sbjct: 523 cccacataagccacagcagcgaagtgcattactgcgtcaaatgcattttctgcaaatatt 464
Query: 1147 ttcttcacagctttggcatcgcctaagtcagcataaataaactgaagccttccgggttct 1206
|| || || |||||| ||| || ||||||||| |||||||||| |||||||| ||||||
Sbjct: 463 ttatttaccgctttgctatcacccaagtcagcacaaataaactgcagccttcccggttct 404
Score = 67.9 bits (34), Expect = 9e-010
Identities = 94/114 (82%)
Strand = Plus / Minus
Query: 861 aaaatctaagatgatgtcctccgccatcttctttgccttaccatatggattgataggatt 920
||||||| ||| |||||||| ||||| |||||||| || ||||||||||| ||||||
Sbjct: 749 aaaatcttggataatgtcctctgccattttctttgcttttccatatggatttataggaac 690
Query: 921 ctgaggagttgtttctacaataggcatcgtatcaggttcaccataggttgcaca 974
|||||||||| ||| ||||||||| || ||||||| ||||| ||||||||
Sbjct: 689 ctgaggagtttcctctgtaataggcattttagcaggttccccataagttgcaca 636
>gb|DR071198.1|DR071198 RTDK1_18_F12.b1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_18_F12_A029 3', mRNA sequence
Length = 817
Score = 129 bits (65), Expect = 3e-028
Identities = 151/180 (83%)
Strand = Plus / Plus
Query: 1027 actgtcaatgtgttcgatgttatgttgtggtagtacctgagtggctccattgtgctctca 1086
||||||||||| || ||||| ||||| || |||||| | || || || |||||||||||
Sbjct: 73 actgtcaatgtattggatgtaatgttatgatagtacntaagaggatctattgtgctctcg 132
Query: 1087 ccaacataagcaacagcagcaaagtgcataacagcgtcaaatgcattctccgaaaatatt 1146
|| |||||||| |||||||| |||||||| || |||||||||||||| || | |||||||
Sbjct: 133 cccacataagccacagcagcgaagtgcattactgcgtcaaatgcattttctgcaaatatt 192
Query: 1147 ttcttcacagctttggcatcgcctaagtcagcataaataaactgaagccttccgggttct 1206
|| || || |||||| ||| || ||||||||| |||||||||| |||||||| ||||||
Sbjct: 193 ttatttaccgctttgctatcacccaagtcagcacaaataaactgcagccttcccggttct 252
>gb|DR057937.1|DR057937 RTNIT1_8_E08.g1_A029 Roots minus nitrogen Pinus taeda cDNA clone
RTNIT1_8_E08_A029 5', mRNA sequence
Length = 840
Score = 119 bits (60), Expect = 3e-025
Identities = 151/180 (83%), Gaps = 1/180 (0%)
Strand = Plus / Minus
Query: 1027 actgtcaatgtgttcgatgttatgttgtggtagtacctgagtggctccattgtgctctca 1086
||||||||||| || ||||| ||||| || |||||||| || || || |||||||||||
Sbjct: 702 actgtcaatgtattggatgtaatgttatgatagtacctaagaggatctattgtgctctcg 643
Query: 1087 ccaacataagcaacagcagcaaagtgcataacagcgtcaaatgcattctccgaaaatatt 1146
|| |||||||| |||||||| |||||||| || |||||||||||||| || | |||||||
Sbjct: 642 cccacataagccacagcagcgaagtgcattactgcgtcaaatgcattttctgcaaatatt 583
Query: 1147 ttcttcacagctttggcatcgcctaagtcagcataaataaactgaagccttccgggttct 1206
|| || || |||||| ||| || |||||| || |||||||||| |||||||| ||||||
Sbjct: 582 ttatttaccgctttgctatcacccaagtca-cacaaataaactgcagccttcccggttct 524
Score = 52.0 bits (26), Expect = 5e-005
Identities = 71/86 (82%)
Strand = Plus / Minus
Query: 889 ttctttgccttaccatatggattgataggattctgaggagttgtttctacaataggcatc 948
|||||||| || ||||||||||| |||||| |||||||||| ||| |||||||||
Sbjct: 840 ttctttgcttttccatatggatttataggaacctgaggagtttcctctgtaataggcatt 781
Query: 949 gtatcaggttcaccataggttgcaca 974
|| ||||||| ||||| ||||||||
Sbjct: 780 ttagcaggttccccataagttgcaca 755
>gb|BX678625.1|BX678625 BX678625 RS Pinus pinaster cDNA clone RS12B09, mRNA sequence
Length = 542
Score = 89.7 bits (45), Expect = 3e-016
Identities = 102/121 (84%)
Strand = Plus / Minus
Query: 1013 ccattgcctcaagaactgtcaatgtgttcgatgttatgttgtggtagtacctgagtggct 1072
||||||| || | ||| ||||| || || ||||| |||||||| |||||||| ||||| |
Sbjct: 184 ccattgcttccaaaacagtcaaggtatttgatgtaatgttgtgatagtaccttagtggat 125
Query: 1073 ccattgtgctctcaccaacataagcaacagcagcaaagtgcataacagcgtcaaatgcat 1132
| | |||||||| ||||||||||||||||||||||| ||||| || || ||||||||||
Sbjct: 124 caagggtgctctctccaacataagcaacagcagcaaaatgcatgactgcatcaaatgcat 65
Query: 1133 t 1133
|
Sbjct: 64 t 64
>gb|CO197051.1|CO197051 GEO1_3_C05.g1_A029 Root gravitropism April 2003 test Pinus taeda cDNA
clone GEO1_3_C05_A029 5', mRNA sequence
Length = 702
Score = 81.8 bits (41), Expect = 6e-014
Identities = 101/121 (83%)
Strand = Plus / Minus
Query: 1013 ccattgcctcaagaactgtcaatgtgttcgatgttatgttgtggtagtacctgagtggct 1072
||||||| || | ||| ||||| || || ||||| |||||||| |||||||| ||||| |
Sbjct: 483 ccattgcttccaaaacagtcaaggtatttgatgtaatgttgtgatagtaccttagtggat 424
Query: 1073 ccattgtgctctcaccaacataagcaacagcagcaaagtgcataacagcgtcaaatgcat 1132
| | || ||||| ||||||||||||||||||||||| ||||| || || ||||||||||
Sbjct: 423 caagggtactctctccaacataagcaacagcagcaaaatgcatgactgcatcaaatgcat 364
Query: 1133 t 1133
|
Sbjct: 363 t 363
>gb|DR693051.1|DR693051 EST1083139 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWADT74 3' end, mRNA sequence
Length = 691
Score = 73.8 bits (37), Expect = 1e-011
Identities = 100/121 (82%)
Strand = Plus / Minus
Query: 1013 ccattgcctcaagaactgtcaatgtgttcgatgttatgttgtggtagtacctgagtggct 1072
||||||| || | ||| ||||| || || ||||| |||||||| |||||||| ||||| |
Sbjct: 458 ccattgcttccaaaacagtcaaggtatttgatgtaatgttgtgatagtaccttagtggat 399
Query: 1073 ccattgtgctctcaccaacataagcaacagcagcaaagtgcataacagcgtcaaatgcat 1132
| | || ||||| ||||||||||||||||||||||| |||| || || ||||||||||
Sbjct: 398 caagggtactctctccaacataagcaacagcagcaaaatgcacgactgcatcaaatgcat 339
Query: 1133 t 1133
|
Sbjct: 338 t 338
>gb|DT637598.1|DT637598 EST1152529 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMH548 3' end, mRNA sequence
Length = 831
Score = 73.8 bits (37), Expect = 1e-011
Identities = 100/121 (82%)
Strand = Plus / Minus
Query: 1013 ccattgcctcaagaactgtcaatgtgttcgatgttatgttgtggtagtacctgagtggct 1072
||||||| || | ||| ||||| || || ||||| |||||||| |||||||| ||||| |
Sbjct: 466 ccattgcttccaaaacagtcaaggtatttgatgtaatgttgtgatagtaccttagtggat 407
Query: 1073 ccattgtgctctcaccaacataagcaacagcagcaaagtgcataacagcgtcaaatgcat 1132
| | || ||||| ||||||||||||||||||||||| |||| || || ||||||||||
Sbjct: 406 caagggtactctctccaacataagcaacagcagcaaaatgcacgactgcatcaaatgcat 347
Query: 1133 t 1133
|
Sbjct: 346 t 346
>gb|CF396564.1|CF396564 RTDS2_22_F11.g1_A021 Drought-stressed loblolly pine roots DS2 Pinus
taeda cDNA clone RTDS2_22_F11_A021 5', mRNA sequence
Length = 683
Score = 69.9 bits (35), Expect = 2e-010
Identities = 86/103 (83%)
Strand = Plus / Minus
Query: 1013 ccattgcctcaagaactgtcaatgtgttcgatgttatgttgtggtagtacctgagtggct 1072
||||||| || | ||| ||||| || || ||||| |||||||| |||||||| ||||| |
Sbjct: 105 ccattgcttccaaaacagtcaaggtatttgatgtaatgttgtgatagtaccttagtggat 46
Query: 1073 ccattgtgctctcaccaacataagcaacagcagcaaagtgcat 1115
| | || ||||| ||||||||||||||||||||||| |||||
Sbjct: 45 caagggtactctctccaacataagcaacagcagcaaaatgcat 3
>gb|BQ696623.1|BQ696623 NXPV_043_D05_F NXPV (Nsf Xylem Planings wood Vertical) Pinus taeda
cDNA clone NXPV_043_D05 5' similar to Arabidopsis
thaliana sequence At1g30620 UDP-galactose
4-epimerase-like protein see
http://mips.gsf.de/proj/thal/db/index.html, mRNA sequence
Length = 467
Score = 60.0 bits (30), Expect = 2e-007
Identities = 82/101 (81%)
Strand = Plus / Minus
Query: 1090 acataagcaacagcagcaaagtgcataacagcgtcaaatgcattctccgaaaatattttc 1149
|||||||| ||||||| |||||||| || |||||||||||||| | |||||||||
Sbjct: 454 acataagcnncagcagcgaagtgcattactgcgtcaaatgcatttnntgcaaatatttta 395
Query: 1150 ttcacagctttggcatcgcctaagtcagcataaataaactg 1190
|| || ||||| ||| || ||||||||| ||||||||||
Sbjct: 394 tttaccnctttgctatcacccaagtcagcacaaataaactg 354
>gb|BE187099.1|BE187099 NXNV_155_F10_F Nsf Xylem Normal wood Vertical Pinus taeda cDNA clone
NXNV_155_F10 5' similar to Arabidopsis thaliana sequence
At1g30620 UDP-galactose 4-epimerase-like protein see
http://mips.gsf.de/proj/thal/db/index.html, mRNA sequence
Length = 314
Score = 44.1 bits (22), Expect = 0.013
Identities = 77/98 (78%)
Strand = Plus / Minus
Query: 1109 agtgcataacagcgtcaaatgcattctccgaaaatattttcttcacagctttggcatcgc 1168
||||||| | |||||||||||||| || | ||||||||| | | |||||| ||| |
Sbjct: 314 agtgcattanngcgtcaaatgcattttctgcaaatattttatnnnccgctttgctatcac 255
Query: 1169 ctaagtcagcataaataaactgaagccttccgggttct 1206
| ||||||||| |||||| | |||||||| ||||||
Sbjct: 254 ccaagtcagcacaaataannngcagccttcccggttct 217
>gb|BX253780.1|BX253780 BX253780 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone PP088D07, mRNA sequence
Length = 673
Score = 42.1 bits (21), Expect = 0.053
Identities = 21/21 (100%)
Strand = Plus / Minus
Query: 507 cttgcaagcttctacaaactc 527
|||||||||||||||||||||
Sbjct: 333 cttgcaagcttctacaaactc 313
>gb|CO166082.1|CO166082 FLD1_59_E03.b1_A029 Root flooded Pinus taeda cDNA clone
FLD1_59_E03_A029 3', mRNA sequence
Length = 811
Score = 42.1 bits (21), Expect = 0.053
Identities = 21/21 (100%)
Strand = Plus / Minus
Query: 507 cttgcaagcttctacaaactc 527
|||||||||||||||||||||
Sbjct: 324 cttgcaagcttctacaaactc 304
>gb|DR057850.1|DR057850 RTNIT1_8_E08.b1_A029 Roots minus nitrogen Pinus taeda cDNA clone
RTNIT1_8_E08_A029 3', mRNA sequence
Length = 748
Score = 42.1 bits (21), Expect = 0.053
Identities = 21/21 (100%)
Strand = Plus / Minus
Query: 507 cttgcaagcttctacaaactc 527
|||||||||||||||||||||
Sbjct: 214 cttgcaagcttctacaaactc 194
>gb|DR071265.1|DR071265 RTDK1_18_F12.g1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_18_F12_A029 5', mRNA sequence
Length = 527
Score = 42.1 bits (21), Expect = 0.053
Identities = 21/21 (100%)
Strand = Plus / Plus
Query: 507 cttgcaagcttctacaaactc 527
|||||||||||||||||||||
Sbjct: 456 cttgcaagcttctacaaactc 476
>gb|DR099748.1|DR099748 STRR1_58_E10.b1_A033 Stem Response Resistant Pinus taeda cDNA clone
STRR1_58_E10_A033 3', mRNA sequence
Length = 748
Score = 42.1 bits (21), Expect = 0.053
Identities = 21/21 (100%)
Strand = Plus / Minus
Query: 507 cttgcaagcttctacaaactc 527
|||||||||||||||||||||
Sbjct: 109 cttgcaagcttctacaaactc 89
>gb|DR388190.1|DR388190 RTHG1_26_E04.g1_A029 Roots plus added mercury Pinus taeda cDNA
clone RTHG1_26_E04_A029 5', mRNA sequence
Length = 540
Score = 42.1 bits (21), Expect = 0.053
Identities = 21/21 (100%)
Strand = Plus / Plus
Query: 507 cttgcaagcttctacaaactc 527
|||||||||||||||||||||
Sbjct: 433 cttgcaagcttctacaaactc 453
>gb|DR745589.1|DR745589 RTCU1_30_F04.g1_A029 Roots plus added copper Pinus taeda cDNA clone
RTCU1_30_F04_A029 5', mRNA sequence
Length = 638
Score = 42.1 bits (21), Expect = 0.053
Identities = 21/21 (100%)
Strand = Plus / Minus
Query: 507 cttgcaagcttctacaaactc 527
|||||||||||||||||||||
Sbjct: 379 cttgcaagcttctacaaactc 359
>gb|BX248935.1|BX248935 BX248935 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone PP002H04, mRNA sequence
Length = 332
Score = 40.1 bits (20), Expect = 0.21
Identities = 47/56 (83%)
Strand = Plus / Minus
Query: 1078 gtgctctcaccaacataagcaacagcagcaaagtgcataacagcgtcaaatgcatt 1133
|||||||| ||| ||||| || || ||||||| ||||| || || |||||||||||
Sbjct: 328 gtgctctctccagcataaacagcaacagcaaaatgcatgactgcatcaaatgcatt 273
Database: Pinus_nucl_with_EST.fasta
Posted date: Feb 7, 2006 2:45 PM
Number of letters in database: 217,277,237
Number of sequences in database: 355,925
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 149,247
Number of Sequences: 355925
Number of extensions: 149247
Number of successful extensions: 42469
Number of sequences better than 0.5: 19
Number of HSP's better than 0.5 without gapping: 19
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 42431
Number of HSP's gapped (non-prelim): 38
length of query: 1214
length of database: 217,277,237
effective HSP length: 19
effective length of query: 1195
effective length of database: 210,514,662
effective search space: 251565021090
effective search space used: 251565021090
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)