BLASTN 2.2.26+
Reference:
Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb Miller (2000),
"A greedy algorithm for aligning DNA sequences", J Comput Biol 2000;
7(1-2):203-14.
Database: TAIR10_cdna_20110103_representative_gene_model_updated
33,602 sequences; 51,074,197 total letters
Query= Ahg930428
Length=1558
Score E
Sequences producing significant alignments: (Bits) Value
AT3G23780.1 | Symbols: NRPD2A, DRD2, NRPD2, DMS2, NRPE2 | nucle... 1554 0.0
AT3G18090.1 | Symbols: NRPD2B | nuclear RNA polymerase D2B | ch... 1454 0.0
> AT3G23780.1 | Symbols: NRPD2A, DRD2, NRPD2, DMS2, NRPE2 | nuclear
RNA polymerase D2A | chr3:8567731-8574190 REVERSE LENGTH=3955
Length=3955
Score = 1554 bits (841), Expect = 0.0
Identities = 958/1014 (94%), Gaps = 9/1014 (1%)
Strand=Plus/Plus
Query 21 ATGGACATTGATGAGATGGATATTGAAGAGATCGAGG---CTACTGCGGAGATCAATCTA 77
||||||||||||| || |||| |||||||| |||||| |||||| |||||||||||||
Sbjct 206 ATGGACATTGATGTGAAGGATCTTGAAGAGTTCGAGGCTACTACTGGGGAGATCAATCTA 265
Query 78 TCTGAGCTAGGAGAAAGTTTTCTCCAGAGTTTCTGCAAGAAAGCTGCAACTTCCTTCTTT 137
||||||||||||||| ||||||| |||||||||||||| |||||||||||||| ||||||
Sbjct 266 TCTGAGCTAGGAGAAGGTTTTCTGCAGAGTTTCTGCAAAAAAGCTGCAACTTCTTTCTTT 325
Query 138 GATAAGTATGGGCTTATAAGTCATCAGCTCAACTCCTACAACTTCTTCATTCAACACGGG 197
||||||||||| ||||||||||||||||||||||||||||||| ||||||| ||||||||
Sbjct 326 GATAAGTATGGACTTATAAGTCATCAGCTCAACTCCTACAACTACTTCATTGAACACGGG 385
Query 198 CTTCAGGATGTGTTTGAATCCTTTGGTGATATGCTTGTGGAACCGTCGTTTGATG-TGAT 256
|||||| |||||||| ||||||||||||| ||||||||||||||||| ||||||| || |
Sbjct 386 CTTCAGAATGTGTTTCAATCCTTTGGTGAGATGCTTGTGGAACCGTCTTTTGATGTTG-T 444
Query 257 AAAGAAGAAGGATAACGATTGGAGATACGCTACGGTGAAATTCGGAAAAGTCACTGTGGA 316
||||||||||||||| |||||||||||||| |||||||| |||||| |||||||||||||
Sbjct 445 AAAGAAGAAGGATAATGATTGGAGATACGCAACGGTGAAGTTCGGAGAAGTCACTGTGGA 504
Query 317 GAAGCCCACTTTCTTTTCCGATGACAAGGAGCTTGAGTTTCTCCCATGGCATGCCAGGCT 376
|||||| ||||||||||| ||||||||||||||||||||||||||||||||||| |||||
Sbjct 505 GAAGCCTACTTTCTTTTCGGATGACAAGGAGCTTGAGTTTCTCCCATGGCATGCTAGGCT 564
Query 377 TCAGAACATGACATATTCAGCAAGGATCAAAGTCAATGTCCAAGTTGAGGTGTTCATA-A 435
||||||||||||||| || ||||||||||||||||||||||||||||||||||||| | |
Sbjct 565 TCAGAACATGACATACTCTGCAAGGATCAAAGTCAATGTCCAAGTTGAGGTGTTCA-AGA 623
Query 436 AAACTGTTGTTAAAAGCGACAAATTCAAGACGGGACAAGACGAA-TATGTCGAGAAGAAG 494
| ||||||||||||||||||||||||||||| ||||||||| || |||||||||||||||
Sbjct 624 ATACTGTTGTTAAAAGCGACAAATTCAAGACAGGACAAGAC-AACTATGTCGAGAAGAAG 682
Query 495 ATACTTGAGGTCAAAAAGCAGGACATTCTAATTGGTAGCATTCCTGTCATGGTGAAATCT 554
||||| || |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 683 ATACTGGATGTCAAAAAGCAGGACATTCTAATTGGTAGCATTCCTGTCATGGTGAAATCT 742
Query 555 GTCCTTTGCAAAACAAGCGAGAAAGGAAAAGAAAACTGCAGAAAGGGGGATTGTGCCTTT 614
||||||||||||||||||||||||| ||||||||||||| |||||||||||||||||||
Sbjct 743 ATCCTTTGCAAAACAAGCGAGAAAGGGAAAGAAAACTGCAAAAAGGGGGATTGTGCCTTT 802
Query 615 GATCAGGGTGGCTATTTTGTGATAAAGGGGGCTGAGAAGGTGTTTATAGCTCAAGAACAG 674
||||||||||| ||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct 803 GATCAGGGTGGATATTTCGTGATAAAGGGGGCTGAGAAGGTGTTTATAGCTCAAGAACAG 862
Query 675 ATGTGCACAAAGAGACTGTGGATTTCTAACTCACCATGGACAGTCTCTTTCAGGTCCGAA 734
||||||||||||||||||||||||||||| ||||||||||||||||| ||||||||||||
Sbjct 863 ATGTGCACAAAGAGACTGTGGATTTCTAATTCACCATGGACAGTCTCCTTCAGGTCCGAA 922
Query 735 AACAAAAGAAATAGGTTCATTGTGCGCCTCTCGGAGAATGAGAAATCAGAAGACTATAAG 794
|| ||||||||||| |||||||||||||||||||||||||||||| ||||||||||||||
Sbjct 923 AATAAAAGAAATAGATTCATTGTGCGCCTCTCGGAGAATGAGAAAGCAGAAGACTATAAG 982
Query 795 AAAAGGGAGAAAGTACTGACAGTGTACTTCTTGTCGACTGAGATTCCAGTCTGGCTCCTG 854
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 983 AGAAGGGAGAAAGTACTGACAGTGTACTTCTTGTCGACTGAGATTCCAGTCTGGCTCCTC 1042
Query 855 TTCTTTGCGCTGGGTGTTTCGTCAGACAAAGAAGCCATGAATCTGATTGCTTTTGATGGT 914
||||||||||| ||||||||||||||||||||||||||| |||| |||||||||||||||
Sbjct 1043 TTCTTTGCGCTAGGTGTTTCGTCAGACAAAGAAGCCATGGATCTAATTGCTTTTGATGGT 1102
Query 915 GATGATGCAAGCATTACCAACAGTCTCATAGCTTCTATCCATGAAGCTGATGCAGTTTGT 974
||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct 1103 GATGATGCAAGCATTACCAACAGTCTCATAGCTTCTATCCATGTAGCTGATGCAGTTTGT 1162
Query 975 GAAGCTTTTCGCTGTGGGAACAATGCTTTAAGTTATGTTGAACAGCAGATCAAA 1028
||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct 1163 GAAGCTTTTCGCTGTGGGAACAATGCTTTAACATATGTTGAACAGCAGATCAAA 1216
Score = 880 bits (476), Expect = 0.0
Identities = 508/524 (97%), Gaps = 0/524 (0%)
Strand=Plus/Plus
Query 1035 AGGGCCGGCTTTTCAAGATGGGGAAACGAAAGGGTCTACAATGGTAGATCGGGTGAGATG 1094
||||||||||||||||||||||||||||||||||||||||| |||||||| |||||||||
Sbjct 3212 AGGGCCGGCTTTTCAAGATGGGGAAACGAAAGGGTCTACAACGGTAGATCAGGTGAGATG 3271
Query 1095 ATGCGTTCTCTGATATTCATGGGCCCAACTTTCTACCAGCGACTTGTCCACATGTCAGAG 1154
||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 3272 ATGCGTTCTATGATATTCATGGGCCCAACTTTCTACCAGCGACTTGTCCACATGTCAGAG 3331
Query 1155 GACAAAGTCAAGTTCAGGAACACCGGACCAGTCCACCCGCTCACACGCCAGCCAGTCGCA 1214
||||||||||||||||||||||| |||||||||||||||||||||||||||||||| |||
Sbjct 3332 GACAAAGTCAAGTTCAGGAACACTGGACCAGTCCACCCGCTCACACGCCAGCCAGTTGCA 3391
Query 1215 GACAGGAAGAGGTTTGGCGGGATAAGGTTTGGAGAAATGGAGCGAGACTGCCTAATAGCT 1274
||||||||||| ||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct 3392 GACAGGAAGAGATTTGGCGGGATAAAATTTGGAGAAATGGAGCGAGACTGCCTAATAGCT 3451
Query 1275 CACGGTGCATCTGCTAATCTGCACGAGCGTCTCTTCACTCTAAGTGACTCTTCTCAGATG 1334
||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct 3452 CACGGTGCATCAGCTAATCTGCATGAGCGTCTCTTCACTCTAAGTGACTCTTCTCAGATG 3511
Query 1335 CACATCTGCAGAAAATGTAAGACCTATGCGAATGTGATCGAGAGGACTCCAAGCAGTGGA 1394
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 3512 CACATCTGCAGAAAATGTAAGACCTATGCGAATGTGATCGAGAGGACTCCAAGCAGTGGA 3571
Query 1395 AGAAAGATCAGAGGGCCATATTGTAGAGTCTGCGCATCCTCAGACCATGTGGTTAGAGTC 1454
|||||||| ||||||||||||||||||||||||| ||||||||||||||||||||| |||
Sbjct 3572 AGAAAGATTAGAGGGCCATATTGTAGAGTCTGCGTATCCTCAGACCATGTGGTTAGGGTC 3631
Query 1455 TATGTTCCTTATGGAGCTAAGCTTCTGTGTCAGGAGCTGTTCAGCATGGGCATCACTCTC 1514
|||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 3632 TATGTTCCGTATGGAGCTAAGCTTCTGTGTCAGGAGCTGTTCAGCATGGGCATCACTCTC 3691
Query 1515 AACTTCGACACCAAGCTCTGCTGATTACCCCTCTTTATTATGTA 1558
||||||||||||||||| |||||||| |||||||||||||||||
Sbjct 3692 AACTTCGACACCAAGCTATGCTGATTCCCCCTCTTTATTATGTA 3735
> AT3G18090.1 | Symbols: NRPD2B | nuclear RNA polymerase D2B |
chr3:6194564-6200237 FORWARD LENGTH=3715
Length=3715
Score = 1454 bits (787), Expect = 0.0
Identities = 940/1014 (93%), Gaps = 9/1014 (1%)
Strand=Plus/Plus
Query 19 AGATGGACATTGATGAGATGGATATTGAAGAGATCGAGGCTACTGCGG-AGATCAATCTA 77
|||| ||||| ||||||||||| |||| ||||||||| || ||| || |||||||| |
Sbjct 172 AGATAGACATAAATGAGATGGATGTTGACGAGATCGAGTCTGCTG-GGCAGATCAATATT 230
Query 78 TCTGAGCTAGGAGAAAGTTTTCTCCAGAGTTTCTGCAAGAAAGCTGCAACTTCCTTCTTT 137
|||||||||||||||||||||||||||| ||||||||| |||||||| || || ||||||
Sbjct 231 TCTGAGCTAGGAGAAAGTTTTCTCCAGACTTTCTGCAAAAAAGCTGCGACATCTTTCTTT 290
Query 138 GATA-AGTATGGGCTTATAAGTCATCAGCTCAACTCCTACAACTTCTTCATTCAACACGG 196
|| | ||| ||| ||||||||||||||||| ||||||||||||||||||||| |||||||
Sbjct 291 GA-AGAGTTTGGACTTATAAGTCATCAGCTTAACTCCTACAACTTCTTCATTGAACACGG 349
Query 197 GCTTCAGGATGTGTTTGAATCCTTTGGTGATATGCTTGTGGAACCGTCGTTTGATGTGAT 256
||||||| |||||||||| ||||||||||| || |||||||||||||| |||||||| ||
Sbjct 350 GCTTCAGAATGTGTTTGAGTCCTTTGGTGACATTCTTGTGGAACCGTCTTTTGATGTAAT 409
Query 257 AAAGAAGAAGGATAACGATTGGAGATACGCTACGGTGAAATTCGGAAAAGTCACTGTGGA 316
||||||||||||| ||||||||||||||| ||||||||||| |||||||||||| ||||
Sbjct 410 AAAGAAGAAGGATGGCGATTGGAGATACGCAACGGTGAAATTTGGAAAAGTCACTTTGGA 469
Query 317 GAAGCCCACTTTCTTTTCCGATGACAAGGAGCTTGAGTTTCTCCCATGGCATGCCAGGCT 376
|||||| || |||||||| |||||||||||||||||||||||||||||||||| ||||||
Sbjct 470 GAAGCCTACATTCTTTTCGGATGACAAGGAGCTTGAGTTTCTCCCATGGCATG-CAGGCT 528
Query 377 TCAGAACATGACATATTCAGCAAGGATCAAAGTCAATGTCCAAGTTGAGGTGTTCATAAA 436
||||||||||||||| |||||||||||||||||||||| ||||||||||||||||| |||
Sbjct 529 TCAGAACATGACATACTCAGCAAGGATCAAAGTCAATGCCCAAGTTGAGGTGTTCAAAAA 588
Query 437 AACTGTTGTTAAA-AGCGACAAATTCAAGACGGGACAAGACGAATATGTCGAGAAGAAGA 495
|| |||| ||||| | ||||||||||||||| |||||||| ||||||||||||||| |||
Sbjct 589 AATTGTTATTAAACA-CGACAAATTCAAGACTGGACAAGATGAATATGTCGAGAAGGAGA 647
Query 496 TACTTGAGGTCAAAAAGCAGGACATTCTAATTGGTAGCATTCCTGTCATGGTGAAATCTG 555
|||| || |||||||| ||||||||||||||||||||||| |||||||||||||||||||
Sbjct 648 TACTGGATGTCAAAAAACAGGACATTCTAATTGGTAGCATACCTGTCATGGTGAAATCTG 707
Query 556 TCCTTTGCAAAACAAGCGAGAAAGGAAAAGAAAACTGCAGAAAGGGGGATTGTGCCTTTG 615
||||||||||||| ||||||||||||||||||||||||| ||||||| ||||||||||||
Sbjct 708 TCCTTTGCAAAACTAGCGAGAAAGGAAAAGAAAACTGCAAAAAGGGGAATTGTGCCTTTG 767
Query 616 ATCAGGGTGGCTATTTTGTGATAAAGGGGGCTGAGAAGGTGTTTATAGCTCAAGAACAGA 675
|||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 768 ATCAGGGTGGATATTTTGTGATAAAGGGGGCTGAGAAGGTGTTTATAGCTCAAGAACAGA 827
Query 676 TGTGCACAAAGAGACTGTGGATTTCTAACTCACCATGGACAGTCTCTTTCAGGTCCGAAA 735
|||||||||||||| ||||||||||||| ||||||||||||||||| |||||||||| ||
Sbjct 828 TGTGCACAAAGAGATTGTGGATTTCTAATTCACCATGGACAGTCTCCTTCAGGTCCG-AA 886
Query 736 AC-AAAAGAAATAGGTTCATTGTGCGCCTCTCGGAGAATGAGAAATCAGAAGACTATAAG 794
|| |||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct 887 ACTAAAAGAAATAGGTTCATTGTGCGCCTCTCGGAGAATGAGAAAGCAGAAGACTATAAG 946
Query 795 AAAAGGGAGAAAGTACTGACAGTGTACTTCTTGTCGACTGAGATTCCAGTCTGGCTCCTG 854
| || |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 947 ATAATGGAGAAAGTACTGACAGTGTACTTCTTGTCGACTGAGATTCCAGTCTGGCTCCTG 1006
Query 855 TTCTTTGCGCTGGGTGTTTCGTCAGACAAAGAAGCCATGAATCTGATTGCTTTTGATGGT 914
||||||||| |||||||||| |||||||||||||||||| |||| |||||||| ||||||
Sbjct 1007 TTCTTTGCGTTGGGTGTTTCATCAGACAAAGAAGCCATGGATCTAATTGCTTTCGATGGT 1066
Query 915 GATGATGCAAGCATTACCAACAGTCTCATAGCTTCTATCCATGAAGCTGATGCAGTTTGT 974
|||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct 1067 GATGATGCAAGCATTACCAACAGTCTCATAGCTTCTATCCATGAAGCTGATGCAGTGTGT 1126
Query 975 GAAGCTTTTCGCTGTGGGAACAATGCTTTAAGTTATGTTGAACAGCAGATCAAA 1028
|||||||||||||||||||||||||| ||| ||||||||||| |||||||||
Sbjct 1127 GAAGCTTTTCGCTGTGGGAACAATGCCCTAACATATGTTGAACATCAGATCAAA 1180
Score = 880 bits (476), Expect = 0.0
Identities = 509/525 (97%), Gaps = 2/525 (0%)
Strand=Plus/Plus
Query 1035 AGGGCCGGCTTTTCAAGATGGGGAAACGAAAGGGTCTACAATGGTAGATCGGGTGAGATG 1094
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 3179 AGGGCCGGCTTTTCAAGATGGGGAAACGAAAGGGTCTACAATGGTAGATCGGGTGAGATG 3238
Query 1095 ATGCGTTCTCTGATATTCATGGGCCCAACTTTCTACCAGCGACTTGTCCACATGTCAGAG 1154
||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 3239 ATGCGCTCTCTGATATTCATGGGCCCAACTTTCTACCAGCGACTTGTCCACATGTCAGAG 3298
Query 1155 GACAAAGTCAAGTTCAGGAACACCGGACCAGTCCACCCGCTCACACGCCAGCCAGTCGCA 1214
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 3299 AACAAAGTCAAGTTCAGGAACACCGGACCAGTCCACCCGCTCACACGCCAGCCAGTCGCA 3358
Query 1215 GACAGGAAGAGGTTTGGCGGGATAAGGTTTGGAGAAATGGAGCGAGACTGCCTAATAGCT 1274
||| |||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct 3359 GACCGGAAGAGGTTTGGCGGGATAAGATTTGGAGAAATGGAGCGAGACTGCCTAATAGCT 3418
Query 1275 CACGGTGCATCTGCTAATCTGCACGAGCGTCTCTTCACTCTAAGTGACTCTTCTCAGATG 1334
||||||||||| ||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct 3419 CACGGTGCATCCGCTAATCTGCACGAGCGGCTCTTCACTCTAAGTGACTCTTCTCAGATG 3478
Query 1335 CACATCTGCAGAAAATGTAAGACCTATGCGAATGTGATCGAGAGGACTCCAAGCAGTGGA 1394
||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct 3479 CACATCTGCAGAAAATGCAAGACCTATGCGAATGTGATCGAGAGGACTCCAAGCAGTGGA 3538
Query 1395 AGAAAGATCAGAGGGCCATATTGTAGAGTCTGCGCATCCTCAGACCATGTGGTTAGAGTC 1454
||||||||||||||||||||||| ||||| ||||||||||| |||||||||||||| |||
Sbjct 3539 AGAAAGATCAGAGGGCCATATTGCAGAGTGTGCGCATCCTCCGACCATGTGGTTAGGGTC 3598
Query 1455 TATGTTCCTTATGGAGCTAAGCTTCTGTGTCAGGAGCTGTTCAGCATGGGCATCACTCTC 1514
|||||||||||||||||||||||||| |||||||||||||||||||||||||| ||||||
Sbjct 3599 TATGTTCCTTATGGAGCTAAGCTTCTTTGTCAGGAGCTGTTCAGCATGGGCATTACTCTC 3658
Query 1515 AACTTCGACACCAAGCTCTGCTGATTACCCC-TCTTTATTATGTA 1558
|||||||||||||||||||||||||| |||| || ||||||||||
Sbjct 3659 AACTTCGACACCAAGCTCTGCTGATT-CCCCGTCATTATTATGTA 3702
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 76907234940
Database: TAIR10_cdna_20110103_representative_gene_model_updated
Posted date: Sep 25, 2014 6:13 PM
Number of letters in database: 51,074,197
Number of sequences in database: 33,602
Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5