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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgcgtttgagcttgcccatttagataggcctgctgcaagctcaatagtttttcatttgtcaatagaattattctcttagtcaaactacttttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT

Basic information

species Glycine max
transcript GLYMA20G32530.5
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|192325133|gb|FK017519.1|FK017519
EST:     ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|192295767|gb|FG990847.1|FG990847
EST:     ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|151399368|gb|EV269239.1|EV269239
EST:     ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|298189311|gb|HO037714.1|HO037714
EST:     ATCAAGATTATAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|192307320|gb|FK002384.1|FK002384
EST:     ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|151402040|gb|EV271853.1|EV271853
EST:     ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|298192825|gb|HO033259.1|HO033259
EST:     ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|10231625|gb|BE800513.1|BE800513
EST:     ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|298167095|gb|HO010534.1|HO010534
EST:     GTCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|192323408|gb|FK018999.1|FK018999
EST:     ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|192313756|gb|FK007320.1|FK007320
EST:     ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|17023121|gb|BM094155.1|BM094155
EST:     ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|192313755|gb|FK007319.1|FK007319
EST:     ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
EST: gi|26058176|gb|CA801090.1|CA801090
EST:     ATCAAGATTACAATCCGAAGATCACTTGTTTTTCTCCGAG                         GGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
genomic: ATCAAGATTACAATCCGAAGATCACTTGTCAGTCTCTGAGgtacattctt ... tttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtttttcatttgtcaatagaattattctcttagtcaaactacttttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT
                                        ctactttttt  CT-rich tract
              tcaatagaattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgcgtttgagcttgcccatttagataggcctgctgcaagctcaatagtttttcatttgtcaatagaattattctcttagtcaaactacttttttggtagGGTGAAAATACTTTTGTGGACTCCAAGAAATCTGAGCTGCCTGGATATGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC