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= Ahg475805
Length=993
Score E
Sequences producing significant alignments: (Bits) Value
AT1G67090.1 | Symbols: RBCS1A | ribulose bisphosphate carboxyla... 1591 0.0
AT5G38420.1 | Symbols: | Ribulose bisphosphate carboxylase (sm... 741 0.0
AT5G38430.1 | Symbols: | Ribulose bisphosphate carboxylase (sm... 726 0.0
AT5G38410.3 | Symbols: | Ribulose bisphosphate carboxylase (sm... 664 0.0
> AT1G67090.1 | Symbols: RBCS1A | ribulose bisphosphate carboxylase
small chain 1A | chr1:25048158-25049424 REVERSE LENGTH=1025
Length=1025
Score = 1591 bits (861), Expect = 0.0
Identities = 955/998 (96%), Gaps = 15/998 (2%)
Strand=Plus/Plus
Query 1 AACCTCACACATATCCACACTCAAAATCCAACGGTCTAGATCCTATTCCACTTGAATCTC 60
||||||||||||||||||||||||||||||||||| ||||||||| ||||||||||||||
Sbjct 1 AACCTCACACATATCCACACTCAAAATCCAACGGTGTAGATCCTAGTCCACTTGAATCTC 60
Query 61 ATGAATCCTAGACCCTCCGATCACTCCAAAGCTTATTCTCATTGTTATTACCATTATATA 120
||| |||||||||||||||||||||||||||||| ||||||||||| ||| |||||||||
Sbjct 61 ATGTATCCTAGACCCTCCGATCACTCCAAAGCTTGTTCTCATTGTTGTTATCATTATATA 120
Query 121 TAGATGACCAAAGCATTAGACCAAACCTCAGTCACACAAAGAGTAAAGAAGAACAATGGC 180
||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct 121 TAGATGACCAAAGCACTAGACCAAACCTCAGTCACACAAAGAGTAAAGAAGAACAATGGC 180
Query 181 TTCCTCTATGCTCTCTTCCGCTACTATGGTTGCCTCTCCGGCTCAGGCCACAATGGTCGC 240
||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct 181 TTCCTCTATGCTCTCTTCCGCTACTATGGTTGCCTCTCCGGCTCAGGCCACTATGGTCGC 240
Query 241 TCCTTTCACCGGACTTAAGTCCTCCGCTGCCTTCCCAGCCACCCGCAAGGCCAACAACGA 300
|||||||| |||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct 241 TCCTTTCAACGGACTTAAGTCCTCCGCTGCCTTCCCAGCCACCCGCAAGGCTAACAACGA 300
Query 301 CATTACTTCCATCACAAGCAACGGCGGAAGAGTTAACTGCATGCAGGTATGGCCTCCCAT 360
|||||||||||||||||||||||||||||||||||||||||||||||| |||||||| ||
Sbjct 301 CATTACTTCCATCACAAGCAACGGCGGAAGAGTTAACTGCATGCAGGTGTGGCCTCCGAT 360
Query 361 TGGAAAGAAGAAGTTTGAGACTCTCTCTTACCTTCCTGACCTTACCGATTCCGAATTGGC 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 361 TGGAAAGAAGAAGTTTGAGACTCTCTCTTACCTTCCTGACCTTACCGATTCCGAATTGGC 420
Query 421 TAAGGAAGTTGACTACCTTCTCCGCAACAAGTGGATTCCTTGTGTTGAATTCGAGTTGGA 480
||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct 421 TAAGGAAGTTGACTACCTTATCCGCAACAAGTGGATTCCTTGTGTTGAATTCGAGTTGGA 480
Query 481 GCACGGATTTGTGTACCGTGAGCACGGTAACACCCCCGGATACTATGATGGACGGTACTG 540
||||||||||||||||||||||||||||||| | ||||||||||||||||||||||||||
Sbjct 481 GCACGGATTTGTGTACCGTGAGCACGGTAACTCACCCGGATACTATGATGGACGGTACTG 540
Query 541 GACAATGTGGAAGCTTCCCTTGTTCGGTTGCACCGACTCCGCTCAAGTGTTGAAGGAAGT 600
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 541 GACAATGTGGAAGCTTCCCTTGTTCGGTTGCACCGACTCCGCTCAAGTGTTGAAGGAAGT 600
Query 601 GCAAGAGTGCAAGAAGGAGTACCCTCAA-GCCTTCATTAGGATCATCGGATTCGACAACA 659
| |||||||||||||||||||||| ||| |||||||||||||||||||||||||||||||
Sbjct 601 GGAAGAGTGCAAGAAGGAGTACCC-CAATGCCTTCATTAGGATCATCGGATTCGACAACA 659
Query 660 CCCGTCAAGTGCAGTGCATCAGTTTCATTGCCTACAAGCCACCAAGCTTCACCGGTTAAT 719
|||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 660 CCCGTCAAGTCCAGTGCATCAGTTTCATTGCCTACAAGCCACCAAGCTTCACCGGTTAAT 719
Query 720 TTCCCTTTGCTTT-GTGTAAACATCAAAACATTATCCCCCACCTTTGATTTTATCCCTTG 778
||||||||||||| |||||||| ||||||| |||||||||| ||||||||||||||||||
Sbjct 720 TTCCCTTTGCTTTTGTGTAAACCTCAAAACTTTATCCCCCATCTTTGATTTTATCCCTTG 779
Query 779 TTCTTCTGctttttttcttcttctttttttatgggttttaatttccggatttaacgtttg 838
|| |||||||||||| |||||| | || ||||||||||||||||| ||||||||||
Sbjct 780 TTTTTCTGCTTTTTT-CTTCTT-TCTT-----GGGTTTTAATTTCCGGACTTAACGTTTG 832
Query 839 ttttccggtttGCGAGACATTTTCTATCGGATTCTCAACTGTCTGATGAAATAAATATGT 898
|||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct 833 TTTTCCGGTTTGCGAGACATATTCTATCGGATTCTCAACTGTCTGATGAAATAAATATGT 892
Query 899 AATGTTCTATAAGTCTTTCGATTTGA-ATTGCATATCAACAAAATGAAAG-AGGACAATG 956
||||||||||||||||||| |||||| || |||||||||||||| |||| |||||||||
Sbjct 893 AATGTTCTATAAGTCTTTCAATTTGATAT-GCATATCAACAAAAAGAAAATAGGACAATG 951
Query 957 CGGCT-CGAAATATGAAATTTACAAGTTGAAGAACCAT 993
||||| | |||||||||||||||||||| |||||||||
Sbjct 952 CGGCTAC-AAATATGAAATTTACAAGTTTAAGAACCAT 988
> AT5G38420.1 | Symbols: | Ribulose bisphosphate carboxylase (small
chain) family protein | chr5:15380945-15382035 REVERSE
LENGTH=861
Length=861
Score = 741 bits (401), Expect = 0.0
Identities = 504/553 (91%), Gaps = 9/553 (2%)
Strand=Plus/Plus
Query 166 AAGAAGAA-CAATGGCTTCCTCTATGCTCTCTTCCGCTACTATGGTTGCCTCTCCGGCTC 224
|||||||| |||||||||||||||| |||| ||| | || ||||| |||| |||||||
Sbjct 47 AAGAAGAAGTAATGGCTTCCTCTATGTTCTCCTCCACCGCTGTGGTTACCTCCCCGGCTC 106
Query 225 AGGCCACAATGGTCGCTCCTTTCACCGGACTT-AAGTCCTCCGCTGCCTTCCCAGCCACC 283
| ||||| ||||||||||| |||||||| ||| ||||| |||||| | ||||| | ||||
Sbjct 107 AAGCCACCATGGTCGCTCCATTCACCGG-CTTGAAGTCATCCGCTTCTTTCCCGGTCACC 165
Query 284 CGCAAGGCCAACAACGACATTACTTCCATCACAAGCAACGGCGGAAGAGTTAACTGCATG 343
||||||||||||||||||||||||||||||||||||||||| |||||||||| |||||||
Sbjct 166 CGCAAGGCCAACAACGACATTACTTCCATCACAAGCAACGGAGGAAGAGTTAGCTGCATG 225
Query 344 CAGGTATGGCCTCCCATTGGAAAGAAGAAGTTTGAGACTCTCTCTTACCTTCCTGACCTT 403
|||| ||||| || || ||||||||||||||||||||||| |||||||| |||||||||
Sbjct 226 AAGGTGTGGCCACCAATCGGAAAGAAGAAGTTTGAGACTCTATCTTACCTCCCTGACCTT 285
Query 404 ACCGA--TTCCGAATTGGCTAAGGAAGTTGACTACCTTCTCCGCAACAAGTGGATTCCTT 461
| || || |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 286 AGTGACGTT--GAATTGGCTAAGGAAGTTGACTACCTTCTCCGCAACAAGTGGATTCCTT 343
Query 462 GTGTTGAATTCGAGTTGGAGCACGGATTTGTGTACCGTGAGCACGGTAACACCCCCGGAT 521
|||||||||||||||||||||||||||||||||||||||||||||| ||||| |||||||
Sbjct 344 GTGTTGAATTCGAGTTGGAGCACGGATTTGTGTACCGTGAGCACGGAAACACTCCCGGAT 403
Query 522 ACTATGATGGACGGTACTGGACAATGTGGAAGCTTCCCTTGTTCGGTTGCACCGACTCCG 581
||||||||||||| ||||||||||||||||||||||| |||||||| |||||||||||||
Sbjct 404 ACTATGATGGACGATACTGGACAATGTGGAAGCTTCCATTGTTCGGATGCACCGACTCCG 463
Query 582 CTCAAGTGTTGAAGGAAGT-GCAAGAGTGCAAGAAGGAGTACCCTCAAGCCTTCATTAGG 640
||||||||||||||||||| | |||| |||||||||||||||||| ||||||||||||
Sbjct 464 CTCAAGTGTTGAAGGAAGTTG-AAGAATGCAAGAAGGAGTACCCTGGCGCCTTCATTAGG 522
Query 641 ATCATCGGATTCGACAACACCCGTCAAGTGCAGTGCATCAGTTTCATTGCCTACAAGCCA 700
||||||||||||||||||||||||||||| || ||||||||||||||||||||||||||
Sbjct 523 ATCATCGGATTCGACAACACCCGTCAAGTCCAATGCATCAGTTTCATTGCCTACAAGCCC 582
Query 701 CCAAGCTTCACCG 713
|||||||||||||
Sbjct 583 CCAAGCTTCACCG 595
> AT5G38430.1 | Symbols: | Ribulose bisphosphate carboxylase (small
chain) family protein | chr5:15384117-15385247 REVERSE
LENGTH=808
Length=808
Score = 726 bits (393), Expect = 0.0
Identities = 499/550 (91%), Gaps = 7/550 (1%)
Strand=Plus/Plus
Query 166 AAGAAGAA-CAATGGCTTCCTCTATGCTCTCTTCCGCTACTATGGTTGCCTCTCCGGCTC 224
|||||||| ||||||||||||||||||||| || || || ||||| |||| |||||||
Sbjct 19 AAGAAGAAGTAATGGCTTCCTCTATGCTCTCCTCTGCCGCTGTGGTTACCTCCCCGGCTC 78
Query 225 AGGCCACAATGGTCGCTCCTTTCACCGGACTT-AAGTCCTCCGCTGCCTTCCCAGCCACC 283
| ||||| ||||||||||| ||||| || || ||||| |||||| | ||||| | ||||
Sbjct 79 AAGCCACCATGGTCGCTCCATTCACTGG-TTTGAAGTCATCCGCTTCTTTCCCGGTCACC 137
Query 284 CGCAAGGCCAACAACGACATTACTTCCATCACAAGCAACGGCGGAAGAGTTAACTGCATG 343
|||||||||||||||||||||||||||||||||||||| || |||||||||| |||||||
Sbjct 138 CGCAAGGCCAACAACGACATTACTTCCATCACAAGCAATGGGGGAAGAGTTAGCTGCATG 197
Query 344 CAGGTATGGCCTCCCATTGGAAAGAAGAAGTTTGAGACTCTCTCTTACCTTCCTGACCTT 403
|||| ||||| || || ||||||||||||||||||||||| |||||||| |||||||||
Sbjct 198 AAGGTGTGGCCACCAATCGGAAAGAAGAAGTTTGAGACTCTATCTTACCTCCCTGACCTT 257
Query 404 ACCGA-TTCCGAATTGGCTAAGGAAGTTGACTACCTTCTCCGCAACAAGTGGATTCCTTG 462
|| || | ||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct 258 ACTGACGT-CGAATTGGCTAAGGAAGTTGACTACCTTCTCCGCAACAAATGGATTCCTTG 316
Query 463 TGTTGAATTCGAGTTGGAGCACGGATTTGTGTACCGTGAGCACGGTAACACCCCCGGATA 522
||||||||||||||||||||||||||||||||||||||||||||| ||||| ||||||||
Sbjct 317 TGTTGAATTCGAGTTGGAGCACGGATTTGTGTACCGTGAGCACGGAAACACTCCCGGATA 376
Query 523 CTATGATGGACGGTACTGGACAATGTGGAAGCTTCCCTTGTTCGGTTGCACCGACTCCGC 582
||| |||||||||||||||||||||||||||||||| |||||||| ||||||||||||||
Sbjct 377 CTACGATGGACGGTACTGGACAATGTGGAAGCTTCCATTGTTCGGATGCACCGACTCCGC 436
Query 583 TCAAGTGTTGAAGGAAGT-GCAAGAGTGCAAGAAGGAGTACCCTCAAGCCTTCATTAGGA 641
|||||||||||||||||| | |||| ||||||||||||||||| |||||||||||||
Sbjct 437 TCAAGTGTTGAAGGAAGTTG-AAGAATGCAAGAAGGAGTACCCGGGCGCCTTCATTAGGA 495
Query 642 TCATCGGATTCGACAACACCCGTCAAGTGCAGTGCATCAGTTTCATTGCCTACAAGCCAC 701
|||||||||||||||||||||||||||| || |||||||||||||||||||||||||| |
Sbjct 496 TCATCGGATTCGACAACACCCGTCAAGTCCAATGCATCAGTTTCATTGCCTACAAGCCCC 555
Query 702 CAAGCTTCAC 711
||||||||||
Sbjct 556 CAAGCTTCAC 565
> AT5G38410.3 | Symbols: | Ribulose bisphosphate carboxylase (small
chain) family protein | chr5:15377173-15378416 REVERSE
LENGTH=999
Length=999
Score = 664 bits (359), Expect = 0.0
Identities = 510/579 (88%), Gaps = 25/579 (4%)
Strand=Plus/Plus
Query 166 AAGAAG-AACAATGGCTTCCTCTATGCTCTCTTCCGCTACTATGGTTGCCTCTCCGGCTC 224
|||||| | ||||||||||||||||||||| ||||| || ||||| | || |||||||
Sbjct 100 AAGAAGTAGTAATGGCTTCCTCTATGCTCTCCTCCGCCGCTGTGGTTACATCCCCGGCTC 159
Query 225 AGGCCACAATGGTCGCTCCTTTCACCGGACTT-AAGTCCTCCGCTGCCTTCCCAGCCACC 283
||||||| ||||||||||| |||||||| ||| ||||| |||||||| ||||| | ||||
Sbjct 160 AGGCCACCATGGTCGCTCCATTCACCGG-CTTGAAGTCATCCGCTGCATTCCCGGTCACC 218
Query 284 CGCAAGGCCAACAACGACATTACTTCCATCACAAGCAACGGCGGAAGAGTTAACTGCATG 343
|||||| ||||||| ||||| ||||||||| |||||||||| |||||||||| |||||||
Sbjct 219 CGCAAGACCAACAAGGACATCACTTCCATCGCAAGCAACGGGGGAAGAGTTAGCTGCATG 278
Query 344 CAGGTATGGCCTCCCATTGGAAAGAAGAAGTTTGAGACTCTCTCTTACCTTCCTGACCTT 403
|||| ||||| || |||||||||||||||||||||||||| |||||||| |||||||||
Sbjct 279 AAGGTGTGGCCACCAATTGGAAAGAAGAAGTTTGAGACTCTATCTTACCTCCCTGACCTT 338
Query 404 ACCGA-TTCCGAATTGGCTAAGGAAGTTGACTACCTTCTCCGCAACAAGTGGATTCCTTG 462
| || | |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 339 AGTGACGT-CGAATTGGCTAAGGAAGTTGACTACCTTCTCCGCAACAAGTGGATTCCTTG 397
Query 463 TGTTGAATTCGAGTTGGAG--------CAC-------GGATTTGTGTACCGTGAGCACGG 507
||||||||||||||| ||| ||| |||||||||||||||||||||||
Sbjct 398 TGTTGAATTCGAGTTAGAGGTAATAAACACAAAACACGGATTTGTGTACCGTGAGCACGG 457
Query 508 TAACACCCCCGGATACTATGATGGACGGTACTGGACAATGTGGAAGCTTCCCTTGTTCGG 567
||||| ||||||||||| |||||||||||||||||||||||||||||||| ||||||||
Sbjct 458 AAACACTCCCGGATACTACGATGGACGGTACTGGACAATGTGGAAGCTTCCATTGTTCGG 517
Query 568 TTGCACCGACTCCGCTCAAGTGTTGAAGGAAGT-GCAAGAGTGCAAGAAGGAGTACCCTC 626
|||||||||||||||||||||||||||||||| | |||| |||||||||||||||||
Sbjct 518 ATGCACCGACTCCGCTCAAGTGTTGAAGGAAGTTG-AAGAATGCAAGAAGGAGTACCCGG 576
Query 627 AAGCCTTCATTAGGATCATCGGATTCGACAACACCCGTCAAGTGCAGTGCATCAGTTTCA 686
||||||||||||||||||||||||||||||||||||||||| || |||||||||||||
Sbjct 577 GCGCCTTCATTAGGATCATCGGATTCGACAACACCCGTCAAGTCCAATGCATCAGTTTCA 636
Query 687 TTGCCTACAAGCCACCAAGCTTCACCG--G-TTAATTTC 722
||||||||||||| ||||||||||||| | ||||||||
Sbjct 637 TTGCCTACAAGCCCCCAAGCTTCACCGAAGCTTAATTTC 675
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 48626654296
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