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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttaccattgttgtgaaacctcactatgattcttgacattactagaccattgttgtgagcttaccaagagcctcttattattttgttcattttcatttgttggtaaactaaattaatattaattctttgattattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCGTTTTAGCTGTTACATGTAAATAGAATAGGAATGTTGAGTAATTCCCTCC

Basic information

species Glycine max
transcript GLYMA12G03640.1
intron # 17
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|8286288|gb|BE023847.1|BE023847
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
EST: gi|208166459|gb|GD965525.1|GD965525
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
EST: gi|208243201|gb|GE038391.1|GE038391
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
EST: gi|208187541|gb|GD985571.1|GD985571
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTTTAAAGGT
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGT
EST: gi|21602284|gb|BQ612615.1|BQ612615
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
EST: gi|192314633|gb|FK008141.1|FK008141
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAG-TGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTT
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTT
EST: gi|207751589|gb|GD722560.1|GD722560
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTTTAAAAGGTGTAAAGGAATTTG
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTTTAAA-GGTGTAAAGGAATTTG
EST: gi|208067168|gb|GD862218.1|GD862218
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
EST: gi|207703703|gb|GD686281.1|GD686281
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
EST: gi|207776530|gb|GD747430.1|GD747430
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
EST: gi|193612916|gb|FK565509.1|FK565509
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCG
EST: gi|51335365|gb|CO979231.1|CO979231
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTT
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTT
EST: gi|254331304|gb|GR845883.1|GR845883
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTTT-AAAGGTGTAAAGGAAT
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAAT
EST: gi|192314634|gb|FK008142.1|FK008142
EST:     ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAG                         TTGAATCAGATCGCCTCGTTT
genomic: ATAATGGCCTCTCTCGGGTCACGCACATCAAAGGTGGTGACATGGTTCAGgtgagtttac ... ttattggcagTTGAATCAGATCGCCTCGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcattttcatttgttggtaaactaaattaatattaattctttgattattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCGTTTTAGCTGTTACATGTAAATAGAATAGGAATGTTGAGTAATTCCCTCC
              ttggtaaactaaatta  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtttaccattgttgtgaaacctcactatgattcttgacattactagaccattgttgtgagcttaccaagagcctcttattattttgttcattttcatttgttggtaaactaaattaatattaattctttgattattggcagTTGAATCAGATCGCCTCGTTTTTAAAGGTGTAAAGGAATTTGCGGAGCTCGTTTTAGCTGTTACATGTAAATAGAATAGGAATGTTGAGTAATTCCCTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT