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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agttaaagctttacattggccatattatgctgtcacatcccggttaatttgatgttttagacttattttgatgtatgcattaatcttcttccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAGTCTGAAGCTACTAACTATGACAG

Basic information

species Glycine max
transcript GLYMA05G14330.1
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|23726817|gb|BU761411.1|BU761411
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|23726961|gb|BU761493.1|BU761493
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|192295112|gb|FG986831.1|FG986831
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|151400518|gb|EV270332.1|EV270332
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|15200376|gb|BI424317.1|BI424317
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|298165082|gb|HO011131.1|HO011131
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|213590582|gb|DB973327.1|DB973327
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|298174725|gb|HO014756.1|HO014756
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCCGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|151409026|gb|EV278834.1|EV278834
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGGTTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|208112458|gb|GD910181.1|GD910181
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|151410622|gb|EV280437.1|EV280437
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGGTGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|16348120|gb|BI973715.1|BI973715
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|192303719|gb|FG994557.1|FG994557
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|298162963|gb|HO011696.1|HO011696
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|298195782|gb|HO044173.1|HO044173
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
EST: gi|193423628|gb|FK387293.1|FK387293
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtactttgac ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttgatgttttagacttattttgatgtatgcattaatcttcttccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAGTCTGAAGCTACTAACTATGACAG
                                cattaat  putative branch site (score: 3)
                                      tcttcttccaatttt  CT-rich tract
         ttttagacttatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agttaaagctttacattggccatattatgctgtcacatcccggttaatttgatgttttagacttattttgatgtatgcattaatcttcttccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGACAAATTGTTGCCAGGGCTAAGTCTGAAGCTACTAACTATGACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - -tatgctg
- - - - - - - - - - - - - - - - -cacatcc
- - - - - - - - - - - - - - - - - - - - - - - - -tgatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgca