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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgattttaactcctatatacgtatatcacatagaggacaggtgtatgtatgtatgtatgtatgtatgtgttgcattttgaaaagaaaaataatcattattgtctttggtacattttaaaatgaaagaatctttctttgctccaatgttcttaacttctttccagGCTGAACTTCAAGGAAGCCGTGGTTGATGCAGACATTGACTTGTTCAAGAAAATTCTTGGAGTAACAATGTACCAGTACATGGAAAACGATCCAAAAATG

Basic information

species Glycine max
transcript GLYMA20G31700.1
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|192333190|gb|FK026071.1|FK026071
EST:     TTGGCTTCATTCACAGCATTTGTCTGTTATCCACCACTCTTACAAGTTTG                         GCTGAACTTCAAGGAAGCCATGGTTGATGCAGACATTGACTTGTTCAAGAA
genomic: TTGGCTTCATTCACAGCATTTGTCTGTTATCCACCACTCTTACAAGTTTGgtcagtgatt ... ttctttccagGCTGAACTTCAAGGAAGCCGTGGTTGATGCAGACATTGACTTGTTCAAGAA
EST: gi|21285614|gb|BQ473485.1|BQ473485
EST:     TTGGCTTCATTCACAGCATTTGTCTGTTATCCACCACTCTTACAAGTTTG                         GTTGAACTTCAAGGAAGCAGTGGTTGATTCAGACATTGACTTGTTCAAGAA
genomic: TTGGCTTCATTCACAGCATTTGTCTGTTATCCACCACTCTTACAAGTTTGgtcagtgatt ... ttctttccagGCTGAACTTCAAGGAAGCCGTGGTTGATGCAGACATTGACTTGTTCAAGAA
EST: gi|15815010|gb|BI787285.1|BI787285
EST:     TTGGCTTCATTCACAGCATTTGTCTGTTATCCACCACTCTTACAAGTTTG                         GTTGAACTTCAAGGAAGCAGTGGTTGATTCAGACATTGACTTGTTCAAGAA
genomic: TTGGCTTCATTCACAGCATTTGTCTGTTATCCACCACTCTTACAAGTTTGgtcagtgatt ... ttctttccagGCTGAACTTCAAGGAAGCCGTGGTTGATGCAGACATTGACTTGTTCAAGAA
EST: gi|22523847|gb|BU082658.1|BU082658
EST:     GCTTCATTCACAGCATTTGTCTGTTATCCACCACTCTTACAAGTTTG                         GCTGAACTTCAAGGAAGCCATGGTTGATGCAGACATTGACTTGTTCAAGAA
genomic: GCTTCATTCACAGCATTTGTCTGTTATCCACCACTCTTACAAGTTTGgtcagtgatt ... ttctttccagGCTGAACTTCAAGGAAGCCGTGGTTGATGCAGACATTGACTTGTTCAAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acattttaaaatgaaagaatctttctttgctccaatgttcttaacttctttccagGCTGAACTTCAAGGAAGCCGTGGTTGATGCAGACATTGACTTGTTCAAGAAAATTCTTGGAGTAACAATGTACCAGTACATGGAAAACGATCCAAAAATG
                                      tcttaac  putative branch site (score: 2)
                                     ttcttaacttctttcc  CT-rich tract
     ttaaaatgaaagaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtgattttaactcctatatacgtatatcacatagaggacaggtgtatgtatgtatgtatgtatgtatgtgttgcattttgaaaagaaaaataatcattattgtctttggtacattttaaaatgaaagaatctttctttgctccaatgttcttaacttctttccagGCTGAACTTCAAGGAAGCCGTGGTTGATGCAGACATTGACTTGTTCAAGAAAATTCTTGGAGTAACAATGTACCAGTACATGGAAAACGATCCAAAAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA