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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcacttttctagcacttatagtgtttctcaattcttcaaagatttctttgcataatattaagttgatttggcattgacatcaaacatcttgttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTCCAAATAACTTTGATGAGGTTGTCTTCGATGAAACAAAAGATGTTCTGGT

Basic information

species Glycine max
transcript GLYMA19G41690.1
intron # 4
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|298196646|gb|HO041389.1|HO041389
EST:     AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAG                         GTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
EST: gi|151396704|gb|EV266577.1|EV266577
EST:     AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAG                         GTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
EST: gi|7146459|gb|AW508381.1|AW508381
EST:     AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAG                         GTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
EST: gi|15812329|gb|BI784604.1|BI784604
EST:     AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAG                         GTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
EST: gi|7925424|gb|AW831389.1|AW831389
EST:     AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTGTGTGAACATTGAAGCAA                         GTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGGTG-TAGTTCTCTCT
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTG-TGGTAGTTCTCTCT
EST: gi|209699181|gb|BW664358.1|BW664358
EST:     AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAG                         GTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
EST: gi|207750098|gb|GD726052.1|GD726052
EST:     AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAG                         GTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTA
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCT-
EST: gi|192330240|gb|FK019835.1|FK019835
EST:     AGGTGCACGTACCGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAG                         GTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
EST: gi|208199962|gb|GD998635.1|GD998635
EST:     AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAG                         GTACAAATGTGAAGATAGCTTCTGTTG
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTG
EST: gi|192299182|gb|FG990454.1|FG990454
EST:     AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAG                         GTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
EST: gi|18692859|gb|BM521707.1|BM521707
EST:     AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAG                         GTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
EST: gi|151410365|gb|EV280180.1|EV280180
EST:     AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAG                         GTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC
genomic: AGGTGCACGTACTGCAGAAGCCCTTGCTGCGTTTGTGAACATTGAAGCAGgtgtttatct ... gttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttgcataatattaagttgatttggcattgacatcaaacatcttgttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTCCAAATAACTTTGATGAGGTTGTCTTCGATGAAACAAAAGATGTTCTGGT
                                            tgttaat  putative branch site (score: 3)
                                         tcttgtt  CT-rich tract
      ataatattaagttgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcacttttctagcacttatagtgtttctcaattcttcaaagatttctttgcataatattaagttgatttggcattgacatcaaacatcttgttaatgcagGTACAAATGTGAAGATAGCTTCTGTTGCATCCAGTGTGGTAGTTCTCTCTCCAAATAACTTTGATGAGGTTGTCTTCGATGAAACAAAAGATGTTCTGGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaacat