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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatcatgcctttaattatatattcagttttttgcttcctgtttgctttttatttctccttcctgctaacatatgcattactgaaaactttggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC

Basic information

species Glycine max
transcript GLYMA10G30880.3
intron # 3
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|11274705|gb|BF325040.1|BF325040
EST:     ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
EST: gi|254336691|gb|GR842870.1|GR842870
EST:     ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
EST: gi|22523739|gb|BU082550.1|BU082550
EST:     TTTTAACGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
genomic: TTTTAACGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
EST: gi|151394304|gb|EV264175.1|EV264175
EST:     ATGGACTGAAGCTTCACATTGATGGGACCCGTATTTTTAACGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
EST: gi|9986743|gb|BE660851.1|BE660851
EST:     ATGGACTGAA-CTTCACATTGATGGGGCCCCTATTTT-AACGCATCAATT                         GCACTTGGTGTTCCANTGGATAGGCTTGTCAAG-CGGTTGATT
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATT
EST: gi|254320847|gb|GR827296.1|GR827296
EST:     ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
EST: gi|21993634|gb|BQ785162.1|BQ785162
EST:     TTGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
EST: gi|15662691|gb|BI700062.1|BI700062
EST:     ATGGACTGAAGCTTCACATTGATGGGGCCCGAATTTTTAACGCATCAGTT                         GCACTTGGTGTTCCCGTGGATAGGCTTGTCCAGGCGGCTGAT
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGAT
EST: gi|151394063|gb|EV263934.1|EV263934
EST:     ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
EST: gi|15338184|gb|BI498848.1|BI498848
EST:     ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttatttctccttcctgctaacatatgcattactgaaaactttggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
                 tgctaac  putative branch site (score: 1)
                                               tttttt  putative PPT
                                               tttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatcatgcctttaattatatattcagttttttgcttcctgtttgctttttatttctccttcctgctaacatatgcattactgaaaactttggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- -catgcct
- - - - - - - - - - - - - - - -tgcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcattac