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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtatttcttattctctgcaatttatttaaagttttggttcccagttacttagtttcttttttaattcatcatttgattcatgttttctcttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG

Basic information

species Glycine max
transcript GLYMA20G34630.1
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|38193466|gb|CF922672.1|CF922672
EST:     CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|193716579|gb|FK653241.1|FK653241
EST:     CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|192329387|gb|FK022163.1|FK022163
EST:     CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|6666781|gb|AW278240.1|AW278240
EST:     CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|298185211|gb|HO030424.1|HO030424
EST:     CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTCGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|6072473|gb|AW101860.1|AW101860
EST:     CTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|6719922|gb|AW307569.1|AW307569
EST:     CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|207716872|gb|GD698570.1|GD698570
EST:     CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|27424466|gb|CA935986.1|CA935986
EST:     CTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|12689982|gb|BG156318.1|BG156318
EST:     CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|193560408|gb|FK519729.1|FK519729
EST:     CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|15200676|gb|BI424472.1|BI424472
EST:     TCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: TCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|15200738|gb|BI424505.1|BI424505
EST:     TCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: TCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|208214400|gb|GE012829.1|GE012829
EST:     AGATCTTCTCCTATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: AGATCTTCTCC-ATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
EST: gi|151411472|gb|EV281283.1|EV281283
EST:     CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAG                         TTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
genomic: CTTCACTCTTCACTTCGCAGCTTCAGATCTTCTCCATCCTCTGAATCAAGgtatgctgct ... cttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttacttagtttcttttttaattcatcatttgattcatgttttctcttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG
                                     tgttttctcttatttc  CT-rich tract
         tttcttttttaattca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagtatttcttattctctgcaatttatttaaagttttggttcccagttacttagtttcttttttaattcatcatttgattcatgttttctcttatttcagTTTTGACTTTATTTGAAGAGTTTCTCAACTGCACTTTCCTTCCAAAATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - ctctgca
- - - - - - - - - - - - - - - - - - tggttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgtt