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= 3115208.2.1
(1469 letters)
Database: At_nucl_with_EST.fasta
1,013,581 sequences; 908,940,872 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BT003958.1| Arabidopsis thaliana clone RAFL15-11-H21 (R2... 64 7e-008
gb|BT005058.1| Arabidopsis thaliana clone U20780 putative p... 64 7e-008
dbj|AP000603.1| Arabidopsis thaliana genomic DNA, chromosom... 64 7e-008
dbj|BA000014.8| Arabidopsis thaliana, chromosome 3, complet... 64 7e-008
ref|NM_112184.2| Arabidopsis thaliana SKS11; copper ion bin... 64 7e-008
ref|NC_003074.4| Arabidopsis thaliana chromosome 3, complet... 64 7e-008
gb|BH864437.1|BH864437 SALK_096049 Arabidopsis thaliana TDN... 62 3e-007
emb|BX285604.1| Arabidopsis thaliana T-DNA flanking sequenc... 54 7e-005
emb|BX002910.1| Arabidopsis thaliana T-DNA flanking sequenc... 52 3e-004
emb|BX285605.1| Arabidopsis thaliana T-DNA flanking sequenc... 52 3e-004
gb|CB259676.1|CB259676 30-E9624-013-004-L07-T7R MPIZ-ADIS-0... 52 3e-004
gb|AY056409.1| Arabidopsis thaliana AT3g13400/MRP15_3 mRNA,... 52 3e-004
gb|AY072225.1| Arabidopsis thaliana putative pollen specifi... 52 3e-004
gb|AY096473.1| Arabidopsis thaliana putative pollen-specifi... 52 3e-004
ref|NM_112185.2| Arabidopsis thaliana SKS13; copper ion bin... 52 3e-004
emb|BX290385.1| Arabidopsis thaliana T-DNA flanking sequenc... 48 0.004
gb|AF367325.1| Arabidopsis thaliana At1g55570/T5A14_1 mRNA,... 48 0.004
gb|AY133602.1| Arabidopsis thaliana At1g55570/T5A14_1 mRNA,... 48 0.004
gb|AC005223.1| Arabidopsis thaliana chromosome I BAC T5A14,... 48 0.004
gb|AE005173.1| Arabidopsis thaliana chromosome 1, bottom ar... 48 0.004
ref|NM_104433.2| Arabidopsis thaliana SKS12; copper ion bin... 48 0.004
ref|NC_003070.5| Arabidopsis thaliana chromosome 1, complet... 48 0.004
emb|AL084275.1|CNS00PAT Arabidopsis thaliana genome survey ... 44 0.068
emb|BX000300.1| Arabidopsis thaliana transposon insertion S... 44 0.068
emb|BX295228.1| Arabidopsis thaliana transposon insertion S... 44 0.068
gb|CL509885.1|CL509885 SAIL_81_B05.v1 SAIL Collection Arabi... 42 0.27
>gb|BT003958.1| Arabidopsis thaliana clone RAFL15-11-H21 (R20780) putative
pectinesterase (pectin methylesterase) family protein
(At3g13390) mRNA, complete cds
Length = 2083
Score = 63.9 bits (32), Expect = 7e-008
Identities = 71/84 (84%)
Strand = Plus / Plus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||| || || |||| ||||| ||||| || ||||||||||| ||
Sbjct: 1031 tggaacttgaccgccagtgcagccaggcctaaccctcagggatcttaccactacggaaag 1090
Query: 438 atcaacatcacccgcaccatcaag 461
||||||||||| ||||||||||||
Sbjct: 1091 atcaacatcacacgcaccatcaag 1114
Score = 44.1 bits (22), Expect = 0.068
Identities = 37/42 (88%)
Strand = Plus / Plus
Query: 665 ccgcaccttcatcgagatcgtcttcgagaaccccgagaagag 706
|||||||||||||||| | || || ||||||| |||||||||
Sbjct: 1321 ccgcaccttcatcgaggtggtgtttgagaaccacgagaagag 1362
>gb|BT005058.1| Arabidopsis thaliana clone U20780 putative pectinesterase (pectin
methylesterase) family protein (At3g13390) mRNA, complete
cds
Length = 1696
Score = 63.9 bits (32), Expect = 7e-008
Identities = 71/84 (84%)
Strand = Plus / Plus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||| || || |||| ||||| ||||| || ||||||||||| ||
Sbjct: 985 tggaacttgaccgccagtgcagccaggcctaaccctcagggatcttaccactacggaaag 1044
Query: 438 atcaacatcacccgcaccatcaag 461
||||||||||| ||||||||||||
Sbjct: 1045 atcaacatcacacgcaccatcaag 1068
Score = 44.1 bits (22), Expect = 0.068
Identities = 37/42 (88%)
Strand = Plus / Plus
Query: 665 ccgcaccttcatcgagatcgtcttcgagaaccccgagaagag 706
|||||||||||||||| | || || ||||||| |||||||||
Sbjct: 1275 ccgcaccttcatcgaggtggtgtttgagaaccacgagaagag 1316
>dbj|AP000603.1| Arabidopsis thaliana genomic DNA, chromosome 3, P1 clone: MRP15
Length = 83287
Score = 63.9 bits (32), Expect = 7e-008
Identities = 71/84 (84%)
Strand = Plus / Minus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||| || || |||| ||||| ||||| || ||||||||||| ||
Sbjct: 6147 tggaacttgaccgccagtgcagccaggcctaaccctcagggatcttaccactacggaaag 6088
Query: 438 atcaacatcacccgcaccatcaag 461
||||||||||| ||||||||||||
Sbjct: 6087 atcaacatcacacgcaccatcaag 6064
Score = 52.0 bits (26), Expect = 3e-004
Identities = 47/54 (87%)
Strand = Plus / Plus
Query: 408 aacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
||||| ||||| || ||||| ||||| |||||||||||||||| |||||||||
Sbjct: 10480 aacccccagggatcttaccattacggaaagatcaacatcacccgtaccatcaag 10533
Score = 44.1 bits (22), Expect = 0.068
Identities = 37/42 (88%)
Strand = Plus / Minus
Query: 665 ccgcaccttcatcgagatcgtcttcgagaaccccgagaagag 706
|||||||||||||||| | || || ||||||| |||||||||
Sbjct: 5857 ccgcaccttcatcgaggtggtgtttgagaaccacgagaagag 5816
>dbj|BA000014.8| Arabidopsis thaliana, chromosome 3, complete sequence
Length = 23403063
Score = 63.9 bits (32), Expect = 7e-008
Identities = 71/84 (84%)
Strand = Plus / Minus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||| || || |||| ||||| ||||| || ||||||||||| ||
Sbjct: 4345523 tggaacttgaccgccagtgcagccaggcctaaccctcagggatcttaccactacggaaag 4345464
Query: 438 atcaacatcacccgcaccatcaag 461
||||||||||| ||||||||||||
Sbjct: 4345463 atcaacatcacacgcaccatcaag 4345440
Score = 52.0 bits (26), Expect = 3e-004
Identities = 47/54 (87%)
Strand = Plus / Plus
Query: 408 aacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
||||| ||||| || ||||| ||||| |||||||||||||||| |||||||||
Sbjct: 4349856 aacccccagggatcttaccattacggaaagatcaacatcacccgtaccatcaag 4349909
Score = 44.1 bits (22), Expect = 0.068
Identities = 37/42 (88%)
Strand = Plus / Minus
Query: 665 ccgcaccttcatcgagatcgtcttcgagaaccccgagaagag 706
|||||||||||||||| | || || ||||||| |||||||||
Sbjct: 4345233 ccgcaccttcatcgaggtggtgtttgagaaccacgagaagag 4345192
>ref|NM_112184.2| Arabidopsis thaliana SKS11; copper ion binding AT3G13390 (SKS11)
mRNA, complete cds
Length = 2067
Score = 63.9 bits (32), Expect = 7e-008
Identities = 71/84 (84%)
Strand = Plus / Plus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||| || || |||| ||||| ||||| || ||||||||||| ||
Sbjct: 1031 tggaacttgaccgccagtgcagccaggcctaaccctcagggatcttaccactacggaaag 1090
Query: 438 atcaacatcacccgcaccatcaag 461
||||||||||| ||||||||||||
Sbjct: 1091 atcaacatcacacgcaccatcaag 1114
Score = 44.1 bits (22), Expect = 0.068
Identities = 37/42 (88%)
Strand = Plus / Plus
Query: 665 ccgcaccttcatcgagatcgtcttcgagaaccccgagaagag 706
|||||||||||||||| | || || ||||||| |||||||||
Sbjct: 1321 ccgcaccttcatcgaggtggtgtttgagaaccacgagaagag 1362
>ref|NC_003074.4| Arabidopsis thaliana chromosome 3, complete sequence
Length = 23470805
Score = 63.9 bits (32), Expect = 7e-008
Identities = 71/84 (84%)
Strand = Plus / Minus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||| || || |||| ||||| ||||| || ||||||||||| ||
Sbjct: 4352224 tggaacttgaccgccagtgcagccaggcctaaccctcagggatcttaccactacggaaag 4352165
Query: 438 atcaacatcacccgcaccatcaag 461
||||||||||| ||||||||||||
Sbjct: 4352164 atcaacatcacacgcaccatcaag 4352141
Score = 52.0 bits (26), Expect = 3e-004
Identities = 47/54 (87%)
Strand = Plus / Plus
Query: 408 aacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
||||| ||||| || ||||| ||||| |||||||||||||||| |||||||||
Sbjct: 4356557 aacccccagggatcttaccattacggaaagatcaacatcacccgtaccatcaag 4356610
Score = 44.1 bits (22), Expect = 0.068
Identities = 37/42 (88%)
Strand = Plus / Minus
Query: 665 ccgcaccttcatcgagatcgtcttcgagaaccccgagaagag 706
|||||||||||||||| | || || ||||||| |||||||||
Sbjct: 4351934 ccgcaccttcatcgaggtggtgtttgagaaccacgagaagag 4351893
>gb|BH864437.1|BH864437 SALK_096049 Arabidopsis thaliana TDNA insertion lines Arabidopsis
thaliana genomic clone SALK_096049, DNA sequence
Length = 62
Score = 61.9 bits (31), Expect = 3e-007
Identities = 52/59 (88%)
Strand = Plus / Plus
Query: 403 ggcccaacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
|||| ||||| ||||| || ||||||||||| ||||||||||||| ||||||||||||
Sbjct: 2 ggcctaaccctcagggatcttaccactacggaaagatcaacatcacacgcaccatcaag 60
>emb|BX285604.1| Arabidopsis thaliana T-DNA flanking sequence GK-384A09-017267,
genomic survey sequence
Length = 121
Score = 54.0 bits (27), Expect = 7e-005
Identities = 51/59 (86%)
Strand = Plus / Minus
Query: 403 ggcccaacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
|||| ||||| ||||| || ||||| ||||| |||||||||||||||| |||||||||
Sbjct: 119 ggcctaacccccagggatcttaccattacggaaagatcaacatcacccgtaccatcaag 61
>emb|BX002910.1| Arabidopsis thaliana T-DNA flanking sequence GK-368A09-017042,
genomic survey sequence
Length = 245
Score = 52.0 bits (26), Expect = 3e-004
Identities = 47/54 (87%)
Strand = Plus / Minus
Query: 408 aacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
||||| ||||| || ||||| ||||| |||||||||||||||| |||||||||
Sbjct: 148 aacccccagggatcttaccattacggaaagatcaacatcacccgtaccatcaag 95
>emb|BX285605.1| Arabidopsis thaliana T-DNA flanking sequence GK-384A09-017271,
genomic survey sequence
Length = 492
Score = 52.0 bits (26), Expect = 3e-004
Identities = 47/54 (87%)
Strand = Plus / Minus
Query: 408 aacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
||||| ||||| || ||||| ||||| |||||||||||||||| |||||||||
Sbjct: 148 aacccccagggatcttaccattacggaaagatcaacatcacccgtaccatcaag 95
>gb|CB259676.1|CB259676 30-E9624-013-004-L07-T7R MPIZ-ADIS-013 Arabidopsis thaliana cDNA
clone MPIZp770L074Q 5-PRIME, mRNA sequence
Length = 527
Score = 52.0 bits (26), Expect = 3e-004
Identities = 47/54 (87%)
Strand = Plus / Plus
Query: 408 aacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
||||| ||||| || ||||| ||||| |||||||||||||||| |||||||||
Sbjct: 178 aacccccagggatcttaccattacggaaagatcaacatcacccgtaccatcaag 231
>gb|AY056409.1| Arabidopsis thaliana AT3g13400/MRP15_3 mRNA, complete cds
Length = 1879
Score = 52.0 bits (26), Expect = 3e-004
Identities = 47/54 (87%)
Strand = Plus / Plus
Query: 408 aacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
||||| ||||| || ||||| ||||| |||||||||||||||| |||||||||
Sbjct: 1131 aacccccagggatcttaccattacggaaagatcaacatcacccgtaccatcaag 1184
>gb|AY072225.1| Arabidopsis thaliana putative pollen specific protein (At3g13400)
mRNA, complete cds
Length = 1895
Score = 52.0 bits (26), Expect = 3e-004
Identities = 47/54 (87%)
Strand = Plus / Plus
Query: 408 aacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
||||| ||||| || ||||| ||||| |||||||||||||||| |||||||||
Sbjct: 1131 aacccccagggatcttaccattacggaaagatcaacatcacccgtaccatcaag 1184
>gb|AY096473.1| Arabidopsis thaliana putative pollen-specific protein (At3g13400)
mRNA, complete cds
Length = 1687
Score = 52.0 bits (26), Expect = 3e-004
Identities = 47/54 (87%)
Strand = Plus / Plus
Query: 408 aacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
||||| ||||| || ||||| ||||| |||||||||||||||| |||||||||
Sbjct: 1012 aacccccagggatcttaccattacggaaagatcaacatcacccgtaccatcaag 1065
>ref|NM_112185.2| Arabidopsis thaliana SKS13; copper ion binding AT3G13400 (SKS13)
mRNA, complete cds
Length = 1898
Score = 52.0 bits (26), Expect = 3e-004
Identities = 47/54 (87%)
Strand = Plus / Plus
Query: 408 aacccgcagggctcctaccactacggccagatcaacatcacccgcaccatcaag 461
||||| ||||| || ||||| ||||| |||||||||||||||| |||||||||
Sbjct: 1131 aacccccagggatcttaccattacggaaagatcaacatcacccgtaccatcaag 1184
>emb|BX290385.1| Arabidopsis thaliana T-DNA flanking sequence GK-435H06-018190,
genomic survey sequence
Length = 409
Score = 48.1 bits (24), Expect = 0.004
Identities = 69/84 (82%)
Strand = Plus / Minus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||| || || |||| ||||| ||||| || ||||| || || ||
Sbjct: 270 tggaacttgaccgccagtgcagccaggcctaaccctcagggatcttaccaatagggaaag 211
Query: 438 atcaacatcacccgcaccatcaag 461
||||||||||| ||||||||||||
Sbjct: 210 atcaacatcacacgcaccatcaag 187
>gb|AF367325.1| Arabidopsis thaliana At1g55570/T5A14_1 mRNA, complete cds
Length = 2088
Score = 48.1 bits (24), Expect = 0.004
Identities = 69/84 (82%)
Strand = Plus / Plus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||||||||| | || ||||| || ||||| ||||||||||| |
Sbjct: 1103 tggaacttgacagccagcgccgctagacctaacccacaaggctcgtaccactacggaaaa 1162
Query: 438 atcaacatcacccgcaccatcaag 461
|| || ||||| ||||||||||||
Sbjct: 1163 attaatatcactcgcaccatcaag 1186
>gb|AY133602.1| Arabidopsis thaliana At1g55570/T5A14_1 mRNA, complete cds
Length = 1668
Score = 48.1 bits (24), Expect = 0.004
Identities = 69/84 (82%)
Strand = Plus / Plus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||||||||| | || ||||| || ||||| ||||||||||| |
Sbjct: 988 tggaacttgacagccagcgccgctagacctaacccacaaggctcgtaccactacggaaaa 1047
Query: 438 atcaacatcacccgcaccatcaag 461
|| || ||||| ||||||||||||
Sbjct: 1048 attaatatcactcgcaccatcaag 1071
>gb|AC005223.1| Arabidopsis thaliana chromosome I BAC T5A14, complete sequence
Length = 87967
Score = 48.1 bits (24), Expect = 0.004
Identities = 69/84 (82%)
Strand = Plus / Minus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||||||||| | || ||||| || ||||| ||||||||||| |
Sbjct: 11933 tggaacttgacagccagcgccgctagacctaacccacaaggctcgtaccactacggaaaa 11874
Query: 438 atcaacatcacccgcaccatcaag 461
|| || ||||| ||||||||||||
Sbjct: 11873 attaatatcactcgcaccatcaag 11850
>gb|AE005173.1| Arabidopsis thaliana chromosome 1, bottom arm complete sequence
Length = 14668883
Score = 48.1 bits (24), Expect = 0.004
Identities = 69/84 (82%)
Strand = Plus / Plus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||||||||| | || ||||| || ||||| ||||||||||| |
Sbjct: 5118435 tggaacttgacagccagcgccgctagacctaacccacaaggctcgtaccactacggaaaa 5118494
Query: 438 atcaacatcacccgcaccatcaag 461
|| || ||||| ||||||||||||
Sbjct: 5118495 attaatatcactcgcaccatcaag 5118518
>ref|NM_104433.2| Arabidopsis thaliana SKS12; copper ion binding AT1G55570 (SKS12)
mRNA, complete cds
Length = 2083
Score = 48.1 bits (24), Expect = 0.004
Identities = 69/84 (82%)
Strand = Plus / Plus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||||||||| | || ||||| || ||||| ||||||||||| |
Sbjct: 1098 tggaacttgacagccagcgccgctagacctaacccacaaggctcgtaccactacggaaaa 1157
Query: 438 atcaacatcacccgcaccatcaag 461
|| || ||||| ||||||||||||
Sbjct: 1158 attaatatcactcgcaccatcaag 1181
>ref|NC_003070.5| Arabidopsis thaliana chromosome 1, complete sequence
Length = 30432563
Score = 48.1 bits (24), Expect = 0.004
Identities = 69/84 (82%)
Strand = Plus / Plus
Query: 378 tggaacctgacggccagcgccgcgcggcccaacccgcagggctcctaccactacggccag 437
|||||| |||| ||||||||||| | || ||||| || ||||| ||||||||||| |
Sbjct: 20762669 tggaacttgacagccagcgccgctagacctaacccacaaggctcgtaccactacggaaaa 20762728
Query: 438 atcaacatcacccgcaccatcaag 461
|| || ||||| ||||||||||||
Sbjct: 20762729 attaatatcactcgcaccatcaag 20762752
>emb|AL084275.1|CNS00PAT Arabidopsis thaliana genome survey sequence T7 end of BAC F8I10 of
IGF library from strain Columbia of Arabidopsis
thaliana, genomic survey sequence
Length = 248
Score = 44.1 bits (22), Expect = 0.068
Identities = 37/42 (88%)
Strand = Plus / Minus
Query: 665 ccgcaccttcatcgagatcgtcttcgagaaccccgagaagag 706
|||||||||||||||| | || || ||||||| |||||||||
Sbjct: 120 ccgcaccttcatcgaggtggtgtttgagaaccacgagaagag 79
>emb|BX000300.1| Arabidopsis thaliana transposon insertion STS SM_3.21771, sequence
tagged site
Length = 360
Score = 44.1 bits (22), Expect = 0.068
Identities = 37/42 (88%)
Strand = Plus / Plus
Query: 665 ccgcaccttcatcgagatcgtcttcgagaaccccgagaagag 706
|||||||||||||||| | || || ||||||| |||||||||
Sbjct: 197 ccgcaccttcatcgaggtggtgtttgagaaccacgagaagag 238
>emb|BX295228.1| Arabidopsis thaliana transposon insertion STS SM_3.2507, sequence
tagged site
Length = 300
Score = 44.1 bits (22), Expect = 0.068
Identities = 37/42 (88%)
Strand = Plus / Plus
Query: 665 ccgcaccttcatcgagatcgtcttcgagaaccccgagaagag 706
|||||||||||||||| | || || ||||||| |||||||||
Sbjct: 195 ccgcaccttcatcgaggtggtgtttgagaaccacgagaagag 236
>gb|CL509885.1|CL509885 SAIL_81_B05.v1 SAIL Collection Arabidopsis thaliana genomic clone
SAIL_81_B05.v1, DNA sequence
Length = 861
Score = 42.1 bits (21), Expect = 0.27
Identities = 21/21 (100%)
Strand = Plus / Plus
Query: 298 gcggcgccccgccggcgccga 318
|||||||||||||||||||||
Sbjct: 798 gcggcgccccgccggcgccga 818
Database: At_nucl_with_EST.fasta
Posted date: Feb 7, 2006 2:09 PM
Number of letters in database: 908,940,872
Number of sequences in database: 1,013,581
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: 463,988
Number of Sequences: 1013581
Number of extensions: 463988
Number of successful extensions: 34927
Number of sequences better than 0.5: 26
Number of HSP's better than 0.5 without gapping: 26
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 34092
Number of HSP's gapped (non-prelim): 835
length of query: 1469
length of database: 908,940,872
effective HSP length: 21
effective length of query: 1448
effective length of database: 887,655,671
effective search space: 1285325411608
effective search space used: 1285325411608
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 21 (42.1 bits)