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= Ahg473553
Length=2062
Score E
Sequences producing significant alignments: (Bits) Value
AT1G33980.2 | Symbols: ATUPF3, UPF3 | Smg-4/UPF3 family protein... 2913 0.0
> AT1G33980.2 | Symbols: ATUPF3, UPF3 | Smg-4/UPF3 family protein
| chr1:12351593-12355023 FORWARD LENGTH=2126
Length=2126
Score = 2913 bits (1577), Expect = 0.0
Identities = 1949/2117 (92%), Gaps = 71/2117 (3%)
Strand=Plus/Plus
Query 1 GGGGAGAGAGGAAACAAAAATTAGGGCAAAATT-GCGTCTTGATGTGTTTCA-------- 51
||| ||||||||||||||||||||||||||||| |||| |||||||||||||
Sbjct 1 GGGAAGAGAGGAAACAAAAATTAGGGCAAAATTAGCGTATTGATGTGTTTCACTTTTCTT 60
Query 52 ---CTT-TTC-T--TC---TTCGTGTTTGATTTGCGACTTTCTCTAAGGAAAATTTAGGG 101
||| ||| | || ||||||||||||||||||||||||| |||||||||||||||
Sbjct 61 CTTCTTCTTCTTCATCGTGTTCGTGTTTGATTTGCGACTTTCTCCAAGGAAAATTTAGGG 120
Query 102 TTTTTGATGAAGGAACCTTTGCAGAAGAAGAAGGTGGTTGTTCGTCACTTGCCGCCTTCT 161
|||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 121 TTTTCGATGAAGGAACCTTTGCAGAAGAAGAAGGTGGTTGTTCGTCACTTGCCGCCTTCT 180
Query 162 CTTTCACAGTCCGATCTCTTATCTCAAATTGATCCTCGTTTCGCTGATCGTTATAATTGG 221
||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct 181 CTTTCACAGTCCGATCTCTTATCTCAAATTGATCCTCGTTTCGCTGATCGTTACAATTGG 240
Query 222 GTTTCGTTTCGTCCTGGGAAGTCC-----A-GCTATAAAAATCAGAAGTATTCACGGGCC 275
|||||||||||||||||||||||| | |||||||||||||||||||||||||||||
Sbjct 241 GTTTCGTTTCGTCCTGGGAAGTCCAGGTTAGGCTATAAAAATCAGAAGTATTCACGGGCC 300
Query 276 TACGTAAGTTTCAAGGCACCAGAAGATGTTTATGAGTTCGCTGCATTTTTCAACGGGCAT 335
|| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 301 TATGTAAGTTTCAAGGCACCAGAAGATGTTTATGAGTTCGCTGCATTTTTCAACGGGCAT 360
Query 336 GTGTTTGTTAATGAAAAGGGTGCTCAGTTTAAGGCTGTAGTTGAATATGCGCCTTCTCAG 395
|||||||||||||||||||||||||||||||||||| ||||||||||||| |||||||||
Sbjct 361 GTGTTTGTTAATGAAAAGGGTGCTCAGTTTAAGGCTATAGTTGAATATGCACCTTCTCAG 420
Query 396 CGTGTGCCGAAACCGTGTGATAAGAAAGATCCTCGTGAAGGGTCTATTAGTAAAGATCCT 455
||||| ||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct 421 CGTGTTCCGAAACCGAGTGATAAGAAAGATCCTCGTGAAGGGTCTATTAGTAAAGATCCT 480
Query 456 GATTATCTGGAGTTCCTTAAGGTGATTGCTCAACCTGTTGAGAATCTTCCTAGTGCTGAA 515
|||||||| ||||| |||||||||||||| ||||||||||||||||||||||||||||||
Sbjct 481 GATTATCTTGAGTTTCTTAAGGTGATTGCACAACCTGTTGAGAATCTTCCTAGTGCTGAA 540
Query 516 ATCCAGTTGGAAAGAAGAGAAGCTGAGCAGTCTGGTGCTTCAAAAGCGGCTCCCATTGTT 575
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 541 ATCCAGTTGGAAAGAAGAGAAGCTGAGCAGTCTGGTGCTTCAAAAGCGGCTCCCATTGTT 600
Query 576 ACCCCTCTTATGGAATTCATACGTCAAAAACGTGCTACTGTGATGGGATCCCAGGGTTTA 635
|| |||||||||||||||||||||||||||||||| |||||||||||| |||||||||||
Sbjct 601 ACACCTCTTATGGAATTCATACGTCAAAAACGTGCCACTGTGATGGGACCCCAGGGTTTA 660
Query 636 TCAGATGTTCGAAGAGGAGGTAGAAGAGCCAGAGTAGTCTCTGCAAACAAGCCGAGTTCA 695
|| ||| |||||||||||||||||||| ||||||||||||||||||||||||||||| ||
Sbjct 661 TCTGATATTCGAAGAGGAGGTAGAAGAACCAGAGTAGTCTCTGCAAACAAGCCGAGTCCA 720
Query 696 AGGCCCTCAAAACGAAACTCTGAAAAGAAAAAGTATGTGGAAAAAGACAGTTCAAAGAAC 755
|||||||| ||||| |||||||||||||||||||||||||||||||| |||||||||||
Sbjct 721 AGGCCCTCGAAACGTAACTCTGAAAAGAAAAAGTATGTGGAAAAAGAAAGTTCAAAGAAT 780
Query 756 GTGCCTCGGAAGAGTACAGCAGACGTCAGCAGCTCTAAGCCAGATTATCGTCAGTCAAAT 815
||||| ||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 781 GTGCCCCGGAAGACTACAGCAGACGTCAGCAGCTCTAAGCCAGATTATCGTCAGTCAAAT 840
Query 816 TCAAGTGGAAATGAAACTGGTAATAAATCAA-CAGCCCCTGTCATCGATAGCTCTCTCCC 874
||||||||||| ||| || | |||| || | ||| || |||| |||||||||| |||
Sbjct 841 TCAAGTGGAAAGGAA-CTACCAGGAAATGAAACTGCCGCTATCATTGATAGCTCTCCCCC 899
Query 875 AGGGATCGCATTGACTATGGATTCTGGGAAGAAAAAGATTTTGCTCCTGA-AGTCAAAAG 933
||||| ||||||||||||||||||||||||||||||||||||||||||| | |||||||
Sbjct 900 TGGGATAGCATTGACTATGGATTCTGGGAAGAAAAAGATTTTGCTCCTGAGA-TCAAAAG 958
Query 934 ACCGAGACAATCCTGATAACCCTCCACCACAACCGGAACAGCATATTGAAACTATTCTTT 993
|||||||||||||||||||||||||||||||||||||||||||||| || |||| |||||
Sbjct 959 ACCGAGACAATCCTGATAACCCTCCACCACAACCGGAACAGCATATAGACACTAATCTTT 1018
Query 994 CTGGAAACTCCACGGCTTCAAGACAGAATCAGAAGAGTGATGTTGGTGGGAGATTGATCA 1053
|| |||||||||||| ||||||||| || ||||||||||||||||||||||| |||||||
Sbjct 1019 CTAGAAACTCCACGGATTCAAGACAAAACCAGAAGAGTGATGTTGGTGGGAGGTTGATCA 1078
Query 1054 AGGGAATACTTCTGA-AAAGTGACTCACGACCGAGCCAGTCTTCCACTTTTGTCCAGCCT 1112
||||||||||||||| ||| |||||| |||||||||||||||||||||||||| ||| ||
Sbjct 1079 AGGGAATACTTCTGAGAAA-TGACTCTCGACCGAGCCAGTCTTCCACTTTTGTGCAGTCT 1137
Query 1113 GAGCAAAGAGTGGAACCCTCAGAAGCTGAAAACTACAAACGACCTCCTCGGCCAGCCAAC 1172
|||||||||||||||||||||||||| |||||||||||||||||| |||| |||||||||
Sbjct 1138 GAGCAAAGAGTGGAACCCTCAGAAGCAGAAAACTACAAACGACCTTCTCGACCAGCCAAC 1197
Query 1173 ACTCGAGCAGGGAAAGATTATCATGCTTCTGGTACCATCAGTGAGAAGCAAGAGAGACGT 1232
|||||||||||||||||||||||| ||||||||||||||||||||||||||||||| |||
Sbjct 1198 ACTCGAGCAGGGAAAGATTATCATACTTCTGGTACCATCAGTGAGAAGCAAGAGAGGCGT 1257
Query 1233 ACAAGAAACAAGGACAGACCTGATCGTGTTGTGTGGGCTCCTCTTCGTCGTGATGGCTCC 1292
|||||||||||||| ||||||||||||||| |||||||||||| |||||||||| |
Sbjct 1258 ACAAGAAACAAGGATAGACCTGATCGTGTTATGTGGGCTCCTC---GTCGTGATGG-T-- 1311
Query 1293 AATATCAGTGAGGATCAACCACTATCTTCAGCAGGAAACAATGGAGAAGTGAAAGACAGG 1352
| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1312 A------GTGAGGATCAACCACTATCTTCAGCAGGAAACAATGGAGAAGTGAAAGACAGG 1365
Query 1353 ATGTTCTCTCAAAGATCTGGAGAAGTGGTGAACTCCTCTGGTGGACACACTCTTGAGAAT 1412
||||||||||||||||| |||||||||||||||||||||||||| |||||||||||||||
Sbjct 1366 ATGTTCTCTCAAAGATCGGGAGAAGTGGTGAACTCCTCTGGTGGTCACACTCTTGAGAAT 1425
Query 1413 GGTTCTGCCAGACATTCTAGTCGTCGTGTTGGAGGTCGCAATAGAAAAGAAGAGTTGATG 1472
||||||||||||||||||||||| |||||||||||||||||||||||||||||| || ||
Sbjct 1426 GGTTCTGCCAGACATTCTAGTCGCCGTGTTGGAGGTCGCAATAGAAAAGAAGAGGTGGTG 1485
Query 1473 ACTGGTGAGGGTAAAACCTCCCGGAGAGGTGGTGGTGGTGGTCCCAATTCACAAGAGAAG 1532
| ||| ||||||||||||||||||||||| ||||||||||||||| |||||| ||||||
Sbjct 1486 ATTGGCGAGGGTAAAACCTCCCGGAGAGGAAGTGGTGGTGGTCCCAGTTCACATGAGAAG 1545
Query 1533 CAAATGTGGATTCAAAAACCATCATTGGGTACTTGATATATTA-CATAACATTGTGGCTA 1591
||||||||||| ||||||||||||| ||||||||||||||| | |||||| ||||||
Sbjct 1546 CAAATGTGGATCCAAAAACCATCATCCGGTACTTGATATATTCTCTTAACATA-TGGCTA 1604
Query 1592 AATATATGAGCCATTCCAATGGATTTTGTCCTTGAACGGGAATCTATAGATCTCAATCGA 1651
|||||||||||||||||| |||||||||||||| || |||||||||||||||||||||||
Sbjct 1605 AATATATGAGCCATTCCACTGGATTTTGTCCTTCAATGGGAATCTATAGATCTCAATCGA 1664
Query 1652 AATGGGGA-GTAACACTATCAACATCACTCGGGTTTTGGAGACTTTTGGTCCAATGTCGT 1710
|||||||| |||||| ||||||||||||| |||||||||||||||||||||||| || ||
Sbjct 1665 AATGGGGAAGTAACATTATCAACATCACTTGGGTTTTGGAGACTTTTGGTCCAACGTTGT 1724
Query 1711 AAGTCGTAGTATTGCACATAAAAGAGGCCGTTCTCAAAGT-AGGAATCAGCTCAAGATTT 1769
|||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct 1725 AAGTCGTAGTATTGCACATAAAAGAGGCCGTTCTCAAAGTTAGGAATCAGCTCAAGATTT 1784
Query 1770 ATGAGA-GAGAGACAAGAAAA----GA---CT-C-G--TTT-G----C----G-G-TTCA 1806
|||||| | |||| ||||||| | || | | ||| | | | | ||||
Sbjct 1785 ATGAGAAGTGAGATAAGAAAAACTCGTTTGCTACTGCCTTTTGAAGGCCCTAGCGGTTCA 1844
Query 1807 CGGTACCTGCATCCCCCCTTTTGGCTTGTGCGGTGTTACAGACAAGTGAGTGAGAAGTGA 1866
|||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct 1845 CGGTACCTGCATCCCCCCTTTTGGCTTGTGCGGTGTCACAGACAAGTGAGTGAGAAGTGA 1904
Query 1867 GAACTTACTCCCAAGTCTGAGTAATGAAAATAAAGTTAAA-GTGTATAGGGAGCGGGAAA 1925
|||||||||| | ||||||||||||||||||||||| ||| ||||||||||||||||||
Sbjct 1905 GAACTTACTCTCGAGTCTGAGTAATGAAAATAAAGTCAAAAGTGTATAGGGAGCGGGAAG 1964
Query 1926 TACAGTGTGTCGGGTTTTATTTTGGGTTCCTGAGAGGCCTTAGAACGTGATTGCACGATT 1985
||||||||||||||||||||||||||||||||||||||||||||| |||||||||| ||
Sbjct 1965 CACAGTGTGTCGGGTTTTATTTTGGGTTCCTGAGAGGCCTTAGAACTTGATTGCACGCTT 2024
Query 1986 TTAACCATATAATAGTTTGATTACTGTGAAGTTAATTTCTGGCTAAGTAATATTTTCTTG 2045
|||||||||||| |||||||||||| |||||||||||||| |||||||||||||||||||
Sbjct 2025 TTAACCATATAAGAGTTTGATTACTTTGAAGTTAATTTCTTGCTAAGTAATATTTTCTTG 2084
Query 2046 TGGAAGTTGGTTTATTT 2062
|||||||| ||||||||
Sbjct 2085 TGGAAGTTAGTTTATTT 2101
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 102208309620
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