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= Ahg476006
Length=3569
Score E
Sequences producing significant alignments: (Bits) Value
AT1G68790.1 | Symbols: LINC3 | little nuclei3 | chr1:25834709-2... 5132 0.0
> AT1G68790.1 | Symbols: LINC3 | little nuclei3 | chr1:25834709-25839319
REVERSE LENGTH=3643
Length=3643
Score = 5132 bits (2779), Expect = 0.0
Identities = 3272/3505 (93%), Gaps = 54/3505 (2%)
Strand=Plus/Plus
Query 105 TTCGAACGGAAATGTTCACTCCGCAGAGGAATCGGTGGCCGGAGACTGACCGGAAAGGAA 164
||||||||||||||||||||||||| |||||||| ||||||||||| |||||||| ||||
Sbjct 152 TTCGAACGGAAATGTTCACTCCGCAAAGGAATCGTTGGCCGGAGACAGACCGGAAGGGAA 211
Query 165 AGGCCATAGCTTTTTCCGACGAAATCATGACACCTCCTCCACAAACAGTGCTTCTCCGAG 224
|||||||||||||||||||||||||||| |||||||||||||||| |||||||||||||
Sbjct 212 AGGCCATAGCTTTTTCCGACGAAATCATTACACCTCCTCCACAAAGGGTGCTTCTCCGAG 271
Query 225 AGGACGATGATTGGCGGAAGTTCAAAGAGGTTGGTTTGCTCGATGAAGCTTCTCTAGAGA 284
|||| |||||||||| |||||||||||||||||| ||||| ||||||||||||||||| |
Sbjct 272 AGGATGATGATTGGCAGAAGTTCAAAGAGGTTGGCTTGCTTGATGAAGCTTCTCTAGAAA 331
Query 285 GAAAAGATCGTGATGCTCTTATAGAGAAAATCTTGAAGCTTGAAAAAGAGTTGTTTGATT 344
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 332 GAAAAGATCGTGATGCTCTTATAGAGAAAATCTTGAAGCTTGAAAAAGAGTTGTTTGATT 391
Query 345 ACCAACATAACATGGGGCTTTTGCTAATTGAGAAGAAGAAGTGGACTTCAACAAATGTAC 404
|||||||||| |||||||| ||||| |||||||||||| ||||||||||||||||| ||
Sbjct 392 ACCAACATAATATGGGGCTATTGCTTATTGAGAAGAAGCAGTGGACTTCAACAAAT-AAC 450
Query 405 -AACTTCAACAAGCTTATGATGAAGCTACAGAGATTCTTAAACGTGAAAAGACGTCGAAT 463
||||||||||||||||||||||||||| ||||| ||||||||||| |||||||| |||
Sbjct 451 GAACTTCAACAAGCTTATGATGAAGCTATGGAGATGCTTAAACGTGAGAAGACGTCAAAT 510
Query 464 GTAATTGCTTTAAATGAAGCTGAAAAAAGAGAAGAGAATCTTAGAAAAGCTTTGATCGCT 523
| |||| |||||||||||||||| |||||||||||||||||||||||||||||||| | |
Sbjct 511 GCAATTACTTTAAATGAAGCTGACAAAAGAGAAGAGAATCTTAGAAAAGCTTTGATTGAT 570
Query 524 GAGAAGCAATTTGTGGCTGAGCTTGAGAAGGATTTGAAGTATTGGCAACAAGAACATTCT 583
|||||||||||||| |||||||||||||| ||||||||||||||||||| |||||| |||
Sbjct 571 GAGAAGCAATTTGTTGCTGAGCTTGAGAATGATTTGAAGTATTGGCAACGAGAACACTCT 630
Query 584 GTGGTGAAGTCTACTTCTGAGGAAAAGTTAGCGGAAGCTAATGCTTTGGTTATTGGTATG 643
|||||||||||||||||||||| |||||||| |||||| ||||||||||| |||||||||
Sbjct 631 GTGGTGAAGTCTACTTCTGAGGCAAAGTTAGAGGAAGCAAATGCTTTGGTAATTGGTATG 690
Query 644 AAGGAAAAAGCTTTAGAGGTGGATAGAGAGAGAGCTATTGCTGAAGAAAAGTTTTCAGTG 703
||||||||||||||||||||||||||||| || || ||||||||||||||||||||||||
Sbjct 691 AAGGAAAAAGCTTTAGAGGTGGATAGAGAAAGGGCCATTGCTGAAGAAAAGTTTTCAGTG 750
Query 704 ATTAATAGAAAGAGTTCTGAGTTAGAACGGAAACTAAAGGAGGTGGAGACTCGTGAAAAG 763
|| |||||||||||||||||||||||||| ||||||||||| |||||||| |||||||||
Sbjct 751 ATGAATAGAAAGAGTTCTGAGTTAGAACGCAAACTAAAGGAAGTGGAGACCCGTGAAAAG 810
Query 764 GTGCTTCAAAGGGACCATCTTTCGCTAGTAACAGAACGAGAAGCACATGAGGCAGTGTTT 823
|||| |||||||| |||||||| ||||| |||||||||||||||||||||||||||||
Sbjct 811 GTGCACCAAAGGGAGCATCTTTCTCTAGTTACAGAACGAGAAGCACATGAGGCAGTGTTC 870
Query 824 TACAAGCAGAGAGAAGACCTACAGGAATGGGAGAAGAAGCTAACACTAGAAGAAGATAGG 883
||||||||||||||||||||||||||||||||||||||| ||||||| ||||||||||||
Sbjct 871 TACAAGCAGAGAGAAGACCTACAGGAATGGGAGAAGAAGTTAACACTGGAAGAAGATAGG 930
Query 884 TTGTCTGAAGTTAAAAGAAGTATTAACCATAGAGAAGAAATAATTATGGAAAAGGAAAGA 943
|||||||||||||||||||| ||||||||||||||||||| | |||||||||| ||||||
Sbjct 931 TTGTCTGAAGTTAAAAGAAGCATTAACCATAGAGAAGAAAGAGTTATGGAAAATGAAAGA 990
Query 944 ACCATCAAGAAGAAAGAGAAGATCCTTGAAAACTTGCAGCAAAAGATTTATATTGCTAAG 1003
|||||| ||||||||||||||||||||||||| || ||||||||||||| | |||| |||
Sbjct 991 ACCATCGAGAAGAAAGAGAAGATCCTTGAAAATTTACAGCAAAAGATTTCTGTTGCCAAG 1050
Query 1004 TCAGAATTGACAGAGAAAGAGGAATCTATAAAGATTAAGCTAAATGACATTTCTTTGAAG 1063
|| ||||| ||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct 1051 TCCGAATTAACAGAGAAAGAAGAATCTATAAAGATTAAGCTAAATGACATTTCTTTGAAG 1110
Query 1064 GAAAAAGACTTCGAGGCCATGAAGGCTAAAGTTGATATCAAAGAGAAGGAGCTCCATGAG 1123
||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1111 GAAAAAGACTTTGAGGCCATGAAGGCTAAAGTTGATATCAAAGAGAAGGAGCTCCATGAG 1170
Query 1124 TTTGAGGAGAAGCTTATTGAAAGGGAGCAGATGGAAATTGGGAAGCTCCTTGATGATCAG 1183
||||||||||| |||||||| |||||||||||||| ||||||||||| ||||||||||||
Sbjct 1171 TTTGAGGAGAATCTTATTGAGAGGGAGCAGATGGAGATTGGGAAGCTTCTTGATGATCAG 1230
Query 1184 AAGGCTGTTCTAGATTCAAGAAGGCAG-GAGTTTGAAATGGAGCTTGAACAGATGAGGAG 1242
||||||||||||||||||||||||| | ||||||||||||||||||||||||||||||||
Sbjct 1231 AAGGCTGTTCTAGATTCAAGAAGGC-GAGAGTTTGAAATGGAGCTTGAACAGATGAGGAG 1289
Query 1243 ATCCCTTGATGAAGAACTCGAGGGAAAGAAAGCTGAAATCGAGCAGCTGCAAATTGAGAT 1302
|||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct 1290 ATCCCTTGATGAAGAACTCGAGGGAAAGAAAGCTGAAATCGAGCAGCTGCAAGTTGAGAT 1349
Query 1303 CAGCGAAAAAGAAGAGAAGTTGGCTAAGAGAGAGGCAGCTTTAGA-AAAAATGGAGGAGG 1361
|||| | |||||||||||||||||||||||||||||||||||||| ||||| ||||||||
Sbjct 1350 CAGCCACAAAGAAGAGAAGTTGGCTAAGAGAGAGGCAGCTTTAGAGAAAAA-GGAGGAGG 1408
Query 1362 GAGTGAAGGAGAAAGAGAAGGATCTTGAAGCAAGTCTCaaaactgtgaaggaaaaagaaa 1421
|||||||| ||||||||||||||||||| ||||| |||||||| |||||||| |||||||
Sbjct 1409 GAGTGAAGAAGAAAGAGAAGGATCTTGATGCAAGGCTCAAAACCGTGAAGGAGAAAGAAA 1468
Query 1422 aatctctaaaagctgaagagaaaaagctgcatatagaaaaTGAGAGATTGCACGAAGATA 1481
|| |||| |||||||||||||||||||||||||| ||||| |||||||||| ||||||||
Sbjct 1469 AAGCTCTGAAAGCTGAAGAGAAAAAGCTGCATATGGAAAACGAGAGATTGCTCGAAGATA 1528
Query 1482 AGGAATGTCTGCGTAAACTAAAAGATGAGATTGAAGAGATTGGGGCTGAGACAACAAAGC 1541
|||||||||||||||||||||||||||||||||||||||| ||| |||||||||||||||
Sbjct 1529 AGGAATGTCTGCGTAAACTAAAAGATGAGATTGAAGAGATCGGGACTGAGACAACAAAGC 1588
Query 1542 AGGAATCAAGGATTCGCGAAGAACATGAAAGTCTCAGGGTTACAAAAGAAGAGAGAGTCG 1601
|||||||||||||||| ||||||||||||||||| ||| |||||||||||||||||||||
Sbjct 1589 AGGAATCAAGGATTCGTGAAGAACATGAAAGTCTTAGGATTACAAAAGAAGAGAGAGTCG 1648
Query 1602 AGTTTCTGAGGCTGCAATCTGAACTGAAGCAGCAGATAGATAAAGTTAAGCAAGAGGAGG 1661
|||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct 1649 AGTTTCTGAGGCTGCAGTCTGAACTGAAGCAGCAGATAGATAAAGTTAAGCAAGAGGAGG 1708
Query 1662 AGGTTCTCTTGAAAGAACGTGAAGAACTGAAACAAGATAAGGAAAGATTTGAGAAAGAGT 1721
|| | |||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1709 AGCTGCTCTTGAAGGAACGTGAAGAACTGAAACAAGATAAGGAAAGATTTGAGAAAGAGT 1768
Query 1722 GGGAAGCTTTGGATCAGAAGAGGGCTGACATAACTAAAGAGCAAAACGAAGTTGCTGAAG 1781
|||||||||||||| ||||||||||| ||||||||| ||||||||| |||||||||||||
Sbjct 1769 GGGAAGCTTTGGATAAGAAGAGGGCTAACATAACTAGAGAGCAAAATGAAGTTGCTGAAG 1828
Query 1782 AAAAGGAGAAACTGAGAAATTTGCAAATATCAGAAAAGCATAGGCTGAAGAGAGAAGAGA 1841
|||| |||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct 1829 AAAACGAGAAACTGAGAAATTTGCAAATATCTGAAAAGCATAGGCTGAAGAGAGAAGAGA 1888
Query 1842 TGACCTCAAGGGATAATTTGAAGAGGGAATTGGATGGTGTCAAGATGCAGAAAGAATCAT 1901
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1889 TGACCTCAAGGGATAATTTGAAGAGGGAATTGGATGGTGTCAAGATGCAGAAAGAATCAT 1948
Query 1902 TTGAAGCCGACATGGAAGATCTTGAGAAGCAAAAAAGGAATCTTGACATGGAGTTTCAGA 1961
||||||||||||||||||||||||||| |||||||||||||||||||||||| |||||||
Sbjct 1949 TTGAAGCCGACATGGAAGATCTTGAGATGCAAAAAAGGAATCTTGACATGGAATTTCAGA 2008
Query 1962 GGCAAGAAGAAGAGGGTGAGAGAGATTTTAATGAAAGGGCGAGAACATATAAGAAGAGAA 2021
|||||||||||| |||||| |||||||||||||||||||||||||||||| |||||||||
Sbjct 2009 GGCAAGAAGAAGCGGGTGAAAGAGATTTTAATGAAAGGGCGAGAACATATGAGAAGAGAA 2068
Query 2022 GCCAAGAAGAGCTTGACAACATCAATTACACAAAGAAGCTGGCTCAAAGAGAGATGGAAG 2081
|||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct 2069 GCCAAGAAGAGCTTGACAACATTAATTACACAAAGAAGCTGGCTCAAAGAGAGATGGAAG 2128
Query 2082 AAGTGCAATACGAGAAGCTTGCTCTTGAGAGGGAAAGAGAACAAATTTCTGTCCAAAAGA 2141
|| |||||||||||||||||||||| ||||||||||||||||||||||| |||| |||||
Sbjct 2129 AAATGCAATACGAGAAGCTTGCTCTGGAGAGGGAAAGAGAACAAATTTCGGTCCGAAAGA 2188
Query 2142 AGTTGTTGAAAGAACAAGAAGCTGAGATGCATAAGGACATCACTGAGCTAGATATACTTA 2201
||||||||||||||||||||||||||||||||||||||||||||||||||||| |||| |
Sbjct 2189 AGTTGTTGAAAGAACAAGAAGCTGAGATGCATAAGGACATCACTGAGCTAGATGTACTCA 2248
Query 2202 GAAGCTCTTTGAAGGAGCAACGAGAAA-AATTTATCTGTGAAAGGGAGCGTTTCTTAGTA 2260
||||||||||||||||| ||||| ||| |||||||||||||||||||||||||| |||||
Sbjct 2249 GAAGCTCTTTGAAGGAGAAACGA-AAAGAATTTATCTGTGAAAGGGAGCGTTTCCTAGTA 2307
Query 2261 TTTCTGGAAAAACTTAAGAGCTGCAGTTCCTGTGGAGAAATAACCGAAAATTTTGTTCTG 2320
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 2308 TTTCTGGAAAAACTTAAGAGCTGCAGTTCCTGTGGAGAAATAACCGAAAATTTTGTTCTG 2367
Query 2321 TCTGATCTTCGACTACCTGATGTTGAGGATGGGGACAAACGTTTCGGGAAACAAAAATTA 2380
|||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct 2368 TCTGATCTTCGACTACCTGATGTTGAAGATGGGGACAAACGTTTCGGGAAACAAAAATTA 2427
Query 2381 ATAGTAGAGGAAGCTTTGAACATTTCTCCCAGTGCAGAGAATAGCAGGAGAACATCTTTG 2440
| || |||||| |||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct 2428 AAAGCAGAGGAGGCTTTGAACATTTCTCCCAGTGCAGAGAATAGCAAGAGAACATCTTTG 2487
Query 2441 CTTGGGAAAATCGCTTCAAAGCTATTGAGCATATCACCAATTGGGAA-A--GATAAAGTC 2497
|||||||||||||||||||||||| |||||||||||||||||||||| | |||||||||
Sbjct 2488 CTTGGGAAAATCGCTTCAAAGCTACTGAGCATATCACCAATTGGGAAGACAGATAAAGTC 2547
Query 2498 ACTGATCTGGGTATAACGGCTAAGCTTCCAGAATCTTCGCAACCTGATGATACTCTGGAT 2557
||||||||||||||||| | ||||||||||||||||||||||||||||||| ||||||||
Sbjct 2548 ACTGATCTGGGTATAACAGTTAAGCTTCCAGAATCTTCGCAACCTGATGATTCTCTGGAT 2607
Query 2558 ATAGTGTCAGGCGATGATCATGAACCGTCTGCTACTGAACAGAGTTTCACAGATAGTAGA 2617
| |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct 2608 AGAGTGTCAGGCGAGGATCATGAACCGTCTGCTACTGAACAGAGTTTCACAGATAGTAGA 2667
Query 2618 ATACAAGATGGTCCTGAAGGTTCCCTGCAATCAGAAATAAAGAGTGATAAACCTAGACga 2677
|||||||| ||||||||||||||||| |||||||| || |||||||||||||||||||||
Sbjct 2668 ATACAAGAAGGTCCTGAAGGTTCCCTCCAATCAGAGATGAAGAGTGATAAACCTAGACGA 2727
Query 2678 ggtagaggtagaggtagaggtagaggtaggggtaAGTCTGCTAGAGGAAGATCGCAAGCA 2737
||||||||||||||||||||||| || | |||||||| |||||||||||||||||||
Sbjct 2728 GGTAGAGGTAGAGGTAGAGGTAG-GG--G---TAAGTCTGTTAGAGGAAGATCGCAAGCA 2781
Query 2738 ACAAAAGCTGCCTCTAGAGATTCAAAACCATCTGATGGTGAAATTCCAAGGAAGCGACAA 2797
|||||||||| || ||||||||||||||||||||||| |||| |||||||||||| |||
Sbjct 2782 ACAAAAGCTGTGTCCAGAGATTCAAAACCATCTGATGGGGAAACTCCAAGGAAGCGGCAA 2841
Query 2798 CGTGAACAGACTTCTAGAATCACAGAAAGTGAACAGGTAGCTGGTGATAGTGATGATGGT 2857
|| |||||||||||||||||||||||||||||||||| |||||||||||||||||| |||
Sbjct 2842 CGCGAACAGACTTCTAGAATCACAGAAAGTGAACAGGCAGCTGGTGATAGTGATGAGGGT 2901
Query 2858 GTAGACAGTACCACAACTGGTGGACGTAGGaaaaaaaGACAGATAGCTGTTCCAGTCTCT 2917
|||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 2902 GTAGACAGTATTACAACTGGTGGACGTAGGAAAAAAAGACAGATAGCTGTTCCAGTCTCT 2961
Query 2918 CAAACGCCTGGACAAAGCCGATATCAACTCAGGAGACATAGAAATGTAGGAACAGAAGAA 2977
|||||||||||||||| ||||||||| |||||||||||||||||||||||||||||||||
Sbjct 2962 CAAACGCCTGGACAAACCCGATATCAGCTCAGGAGACATAGAAATGTAGGAACAGAAGAA 3021
Query 2978 GTTAAAGCACAAGCATCAATGGGTGCCACTAAAAAACAAGAGA-GTGTCAATGGTGATAT 3036
| ||||||||||||||||| |||||||||| |||||||||| | ||||||||| ||||||
Sbjct 3022 GATAAAGCACAAGCATCAAAGGGTGCCACTGAAAAACAAGA-ACGTGTCAATGATGATAT 3080
Query 3037 TAGAACAGTGCCAAGTCCGAAGGAAGCTCTTACTCCACCGCAAGGTGAGAATAGAGAAAA 3096
|||| ||||||||||||||||||| ||| |||||||||| |||||||||||||||||||
Sbjct 3081 CAGAAAAGTGCCAAGTCCGAAGGAAACTCGTACTCCACCGGAAGGTGAGAATAGAGAAAA 3140
Query 3097 TGGCAAAGCTGAAGTATTCGTGGAGACGGTAACACATGAGGAGATTGTTAGGGTTGAAGT 3156
|||||||||||||||||| ||||||||||||||||||||||||||||||| |||||||
Sbjct 3141 TGGCAAAGCTGAAGTATTAGTGGAGACGGTAACACATGAGGAGATTGTTACGGTTGAAAC 3200
Query 3157 AGAGACTGAGTTCAAGGATAACAACACGGGAAATAGGCTAGTCGAAGATCAGCAGTTGGA 3216
||| |||| |||||||| ||||||||| ||||| | | ||||||||||| |||||||||
Sbjct 3201 AGAAACTGTGTTCAAGGTTAACAACACAGGAAAGAACCCAGTCGAAGATCCGCAGTTGGA 3260
Query 3217 AGCAGGAGGCAGCGGTGAAATAAGAGAGCATGGTGAAGATGATGATGAGAATTTCAGCAT 3276
|| ||||||||| |||||||||||||||||||||||||| |||||||||||| |||||||
Sbjct 3261 AGTAGGAGGCAGTGGTGAAATAAGAGAGCATGGTGAAGAAGATGATGAGAATATCAGCAT 3320
Query 3277 GATCGAAGAGGAGAACGAAGGAGAGGAAGAAGAAGAAACCGAGCGCCAAGG---TGATGC 3333
|||||||||||||||||||||||| |||||||||||||| ||||||||||| ||||||
Sbjct 3321 GATCGAAGAGGAGAACGAAGGAGAAGAAGAAGAAGAAACAGAGCGCCAAGGAAATGATGC 3380
Query 3334 TTCCATAGGAAAAAAGATTTGGGTCTTTTTCACAACTTGATCATTTTCTTTATTTCTCTT 3393
|||||||||||||||||||||||||||||||||||| ||||||||||||| ||||||||
Sbjct 3381 TTCCATAGGAAAAAAGATTTGGGTCTTTTTCACAACATGATCATTTTCTTCATTTCTCTC 3440
Query 3394 TAAATA-ACAAAA--A-CTATCCCACATGTAGGATTTTGCAACATCTTGTTATGTGTTGG 3449
|||| | |||||| | | |||||| | ||||||||||||||||||||||||||||||||
Sbjct 3441 TAAA-AGACAAAATTATC-ATCCCATAAGTAGGATTTTGCAACATCTTGTTATGTGTTGG 3498
Query 3450 TTc-ttttttaact-tctt-tttctttttCTAAGCAACTTGAAA--CAAAAAGG------ 3498
||| |||||||||| || ||||||| ||||||||||| |||| ||||||||
Sbjct 3499 TTCGTTTTTTAACTATCACCTTTCTTTATCTAAGCAACT-GAAAAACAAAAAGGAAGTGG 3557
Query 3499 ---C-----A-----TGGGCATTGTAGGAAATGTAACATTTGATTCTTACTCTGCCACTC 3545
| | |||||||||||| ||||||||||||||||| ||||||||| ||||
Sbjct 3558 AATCTTGGGAAGGCATGGGCATTGTAGAAAATGTAACATTTGATTTTTACTCTGCTACTC 3617
Query 3546 CATA-GATAATGCTGGTATTCAAGG 3569
|||| | ||||||||||||||||||
Sbjct 3618 CATAAGGTAATGCTGGTATTCAAGG 3642
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 177691312106
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