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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggttaatgtcactgacataatatgtgtgtgtctatagtttctccttagcagcaaaaaaaattaatttttggaaagaaaaaaaagtgctaatggatttgttctattgttgttgaacaGAAGCAAGACAGTTTCTCAGGGAATGGAGCAGTGGAGAGTGCATTGAATTTTTCTCAATGTGTATCTGCAACAAGAATAAA

Basic information

species Glycine max
transcript GLYMA17G35230.1
intron # 1
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|151410256|gb|EV280071.1|EV280071
EST:     GATGACACTGCAAGCTCTCCTTTTTTCAACTGTGCCAAGGAGAGTCACAA                         GAAGCAAGACAGTTTCTCAGGGAATGGAGCAGTGGAGAGTGCATTGAATTT
genomic: GATGACACTGCAAGCTCTCCTTTTTTCAACTGTGCCAAGGAGAGTCACAAggttaatgtc ... ttgttgaacaGAAGCAAGACAGTTTCTCAGGGAATGGAGCAGTGGAGAGTGCATTGAATTT
EST: gi|192326917|gb|FK019209.1|FK019209
EST:     GATGACACTGCAAGCTCTCCTTTTTTCAACTGTGCCAAGGAGAGTCACAA                         GAAGCAAGACAGTTTCTCAGGGAATGGAGCAGTGGAGAGTGCATTGAATTT
genomic: GATGACACTGCAAGCTCTCCTTTTTTCAACTGTGCCAAGGAGAGTCACAAggttaatgtc ... ttgttgaacaGAAGCAAGACAGTTTCTCAGGGAATGGAGCAGTGGAGAGTGCATTGAATTT
EST: gi|298173616|gb|HO016952.1|HO016952
EST:     GATGACACTGCAAGCTCTCCTTTTTTCAACTGTGCCAAGGAGAGTCACAA                         GAAGCAAGACAGTTTCTCAGGGAATGGAGCAGTGGAGAGTG
genomic: GATGACACTGCAAGCTCTCCTTTTTTCAACTGTGCCAAGGAGAGTCACAAggttaatgtc ... ttgttgaacaGAAGCAAGACAGTTTCTCAGGGAATGGAGCAGTGGAGAGTG
EST: gi|192294509|gb|FG987438.1|FG987438
EST:     GATGACACTGCAAGCTCTCCTTTTTTCAACTGTGCCAAGGAGAGTCACAA                         GAAGCAAGACAGTTTCTCAGGGAATGGAGCAGTGGAGAGTGCATTGAATTT
genomic: GATGACACTGCAAGCTCTCCTTTTTTCAACTGTGCCAAGGAGAGTCACAAggttaatgtc ... ttgttgaacaGAAGCAAGACAGTTTCTCAGGGAATGGAGCAGTGGAGAGTGCATTGAATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatttttggaaagaaaaaaaagtgctaatggatttgttctattgttgttgaacaGAAGCAAGACAGTTTCTCAGGGAATGGAGCAGTGGAGAGTGCATTGAATTTTTCTCAATGTGTATCTGCAACAAGAATAAA
                       tgctaat  putative branch site (score: 2)
          aaagaaaaaaaagt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggttaatgtcactgacataatatgtgtgtgtctatagtttctccttagcagcaaaaaaaattaatttttggaaagaaaaaaaagtgctaatggatttgttctattgttgttgaacaGAAGCAAGACAGTTTCTCAGGGAATGGAGCAGTGGAGAGTGCATTGAATTTTTCTCAATGTGTATCTGCAACAAGAATAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA