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= Ahg927928
Length=506
Score E
Sequences producing significant alignments: (Bits) Value
AT3G03720.1 | Symbols: CAT4 | cationic amino acid transporter 4... 595 1e-169
AT2G38980.1 | Symbols: | pseudogene, similar to fiber protein ... 276 2e-73
AT3G04184.1 | Symbols: | unknown protein; Has 30201 Blast hits... 215 4e-55
> AT3G03720.1 | Symbols: CAT4 | cationic amino acid transporter
4 | chr3:925612-930974 REVERSE LENGTH=2664
Length=2664
Score = 595 bits (322), Expect = 1e-169
Identities = 366/387 (95%), Gaps = 4/387 (1%)
Strand=Plus/Plus
Query 123 AGTTTTCCTCGGTTCACTGTGA-GTGGTGTCAGTGCAGTCATCTTGCTTGGCAGTTTGAT 181
||||||||||| |||||| | | |||||||||||||||||||||||||||||||||||||
Sbjct 2068 AGTTTTCCTCGTTTCACTAT-ATGTGGTGTCAGTGCAGTCATCTTGCTTGGCAGTTTGAT 2126
Query 182 TACTCTTGGCTACATCGACGAGGATGAAGAAAGGCACAACTTTGAACACAAAGGAGGGTT 241
||||||||||||||| |||||||||||||||||||||||||||| |||||||||||||||
Sbjct 2127 TACTCTTGGCTACATTGACGAGGATGAAGAAAGGCACAACTTTGGACACAAAGGAGGGTT 2186
Query 242 TCTCTGCCCATTCGTCCCATACCTTCCAGTTCTTTGCATATTGATCAACACCTACTTGAT 301
||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct 2187 TCTCTGCCCATTCGTCCCATACCTTCCAGTTCTTTGCATTTTGATCAACACCTACTTGAT 2246
Query 302 CATCAACATTGG--CTGGGACATGGATCAGGGTCTTGGTATGGCTACTTATTGGAAGCAT 359
|||||||||||| ||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct 2247 CATCAACATTGGAGCTGGGACATGGATCAGGGTCTTGATATGGCTACTTATTGGAAGCAT 2306
Query 360 GATCTATCTCTTCTATGGCCGATCTCACAGCTTACTGAACAATGCGGTTTACGTTCCAAG 419
||||||| ||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct 2307 GATCTATATCTTCTATGGCCGATCTCACAGCTTACTGAACAATGCGGTTTACGTTCCCAC 2366
Query 420 GACGACTTGTACCAGAAAAACAACAGATCATCTTGCTTAAGATTGGTGGTTCAATGCAGC 479
| ||||||||| |||||||||||||||||||||||||||||||||||| ||||||| ||
Sbjct 2367 AATGACTTGTACGAGAAAAACAACAGATCATCTTGCTTAAGATTGGTGGATCAATGCTGC 2426
Query 480 AGCTGAAGGGAGTCGAGCTCAAGCTTT 506
|| | |||||| |||||||||||||||
Sbjct 2427 AGTTAAAGGGACTCGAGCTCAAGCTTT 2453
> AT2G38980.1 | Symbols: | pseudogene, similar to fiber protein
Fb12, blastp match of 53% identity and 1.2e-13 P-value to
GP|25992543|gb|AAN77151.1||AF531371 fiber protein Fb12 {Gossypium
barbadense} | chr2:16277009-16279354 REVERSE LENGTH=2346
Length=2346
Score = 276 bits (149), Expect = 2e-73
Identities = 180/195 (92%), Gaps = 2/195 (1%)
Strand=Plus/Plus
Query 313 GCTGGGACATGGATCAGGGTCTTGGTATGGCTACTTATTGGAAGCATGATCTATCTCTTC 372
|||||||||||||||||||||||||||| ||||||||| ||||||||||||| |||||||
Sbjct 2008 GCTGGGACATGGATCAGGGTCTTGGTATCGCTACTTATCGGAAGCATGATCTGTCTCTTC 2067
Query 373 TATGGCCGATCTCACAGCTTACTGAACAATGCGGTTTACGTTCCAAGGACGACTTGTACC 432
| ||||||||||||| | || |||||||||| |||||||||||||| ||||||||||||
Sbjct 2068 TGTGGCCGATCTCACTGTTTGCTGAACAATGTGGTTTACGTTCCAACAACGACTTGTACC 2127
Query 433 AGAAAAACAACAGATCATCTTGCTTAAGATTGGTGGTTCAATGCAGC-AGCTGAAGGGAG 491
|||||||||||||||||||||||||||||||||||||| |||||||| | |||||||||
Sbjct 2128 AGAAAAACAACAGATCATCTTGCTTAAGATTGGTGGTTTAATGCAGCTA-CTGAAGGGAC 2186
Query 492 TCGAGCTCAAGCTTT 506
||||| |||||||||
Sbjct 2187 TCGAGTTCAAGCTTT 2201
Score = 134 bits (72), Expect = 1e-30
Identities = 76/78 (97%), Gaps = 0/78 (0%)
Strand=Plus/Plus
Query 236 AGGGTTTCTCTGCCCATTCGTCCCATACCTTCCAGTTCTTTGCATATTGATCAACACCTA 295
||||||||||||| ||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct 1849 AGGGTTTCTCTGCTCATTCGTCCCATACCTTCCAGTTCTTTGCATTTTGATCAACACCTA 1908
Query 296 CTTGATCATCAACATTGG 313
||||||||||||||||||
Sbjct 1909 CTTGATCATCAACATTGG 1926
> AT3G04184.1 | Symbols: | unknown protein; Has 30201 Blast hits
to 17322 proteins in 780 species: Archae - 12; Bacteria -
1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses
- 0; Other Eukaryotes - 2996 (source: NCBI BLink). | chr3:1100085-1100246
REVERSE LENGTH=162
Length=162
Score = 215 bits (116), Expect = 4e-55
Identities = 136/145 (94%), Gaps = 3/145 (2%)
Strand=Plus/Plus
Query 317 GGA-CATGGA-TCAGGGTCTTGGTATGGCTACTTATTGGAAGCATGATCTATCTCTTCTA 374
||| || ||| |||||||||||||||||||| ||| ||||||||||||||||||||||||
Sbjct 19 GGATCAGGGATTCAGGGTCTTGGTATGGCTATTTACTGGAAGCATGATCTATCTCTTCTA 78
Query 375 TGGCCGATCTCACAGCTTACTGAACAATGCGGTTTACGTTCCAAGGACGACTTGTACCAG 434
||||||||||||||||||||||||||||| |||||||||||||| ||||||||| |||||
Sbjct 79 TGGCCGATCTCACAGCTTACTGAACAATGTGGTTTACGTTCCAACGACGACTTGAACCAG 138
Query 435 AAAAACAACAGATCATCTTGCTTAA 459
|||| ||||||||||||||||||||
Sbjct 139 AAAA-CAACAGATCATCTTGCTTAA 162
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 24162624707
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