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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgataaactgatattgcagttgtatatcactgaagcatatttagttactgtgggattgctgatctatctcacacttgtgatgtacattactttatgtcagGATACATATGGACATCCCCAGAAGCTTGTAACATTCCGTCTAAGTACAGGCTTATCTGTCAATCTCTTTGTTCGGAAAATGGTAACTGAAGAACCCAATG

Basic information

species Glycine max
transcript GLYMA17G18400.1
intron # 11
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|21994503|gb|BQ786031.1|BQ786031
EST:     CACCAGAGGCAGATGGGGCCTATGAAAATGTCCAAGGAAGCCAATTAAAG                         GATACATATGGACATCCCCAGAAGCTTGTAACATTCCGTCTAAGTACAGGC
genomic: CACCAGAGGCAGATGGGGCCTATGAAAATGTCCAAGGAAGCCAATTAAAGgtacatatat ... tttatgtcagGATACATATGGACATCCCCAGAAGCTTGTAACATTCCGTCTAAGTACAGGC
EST: gi|58016379|gb|CX703121.1|CX703121
EST:     CACCAGAGGCAGATGGGGCCTATGAAAATGTCCAAGGAAGCCAATTAAAG                         GATACATATGGACATCCCCAGAAGCTTGTAATATTCCGTCTAAGTACAGGC
genomic: CACCAGAGGCAGATGGGGCCTATGAAAATGTCCAAGGAAGCCAATTAAAGgtacatatat ... tttatgtcagGATACATATGGACATCCCCAGAAGCTTGTAACATTCCGTCTAAGTACAGGC
EST: gi|17964645|gb|BM271377.1|BM271377
EST:     AAGGAAGCCAATTAAAG                         GATACATATGGACATCCCCAGAAGCTTGTAACATTCCGTCTAAGTACAGGC
genomic: AAGGAAGCCAATTAAAGgtacatatat ... tttatgtcagGATACATATGGACATCCCCAGAAGCTTGTAACATTCCGTCTAAGTACAGGC
EST: gi|37996891|gb|CF808480.1|CF808480
EST:     CAGATGGGGCCTATGAAAATGTCCAAGGAAGCCAATTAAAG                         GATACATATGGACATCCCCAGAAGCTTGTAACATTCCGTCTAAGTACAGGC
genomic: CAGATGGGGCCTATGAAAATGTCCAAGGAAGCCAATTAAAGgtacatatat ... tttatgtcagGATACATATGGACATCCCCAGAAGCTTGTAACATTCCGTCTAAGTACAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactgtgggattgctgatctatctcacacttgtgatgtacattactttatgtcagGATACATATGGACATCCCCAGAAGCTTGTAACATTCCGTCTAAGTACAGGCTTATCTGTCAATCTCTTTGTTCGGAAAATGGTAACTGAAGAACCCAATG
                    atctcac  putative branch site (score: 3)
                                         ttacttt  putative PPT
                                        attactttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgataaactgatattgcagttgtatatcactgaagcatatttagttactgtgggattgctgatctatctcacacttgtgatgtacattactttatgtcagGATACATATGGACATCCCCAGAAGCTTGTAACATTCCGTCTAAGTACAGGCTTATCTGTCAATCTCTTTGTTCGGAAAATGGTAACTGAAGAACCCAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
-gataaac
- - - - - - - -gcagttg
- - - - - - - - - - - - - -cactgaa
- - - - - - - - - - - - - - - - - - - - - -gttactg
- - - - - - - - - - - - - - - - - - - - - - - - - -gggattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acttgtg