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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcagactttatcatgtgtactgatgcatcaccttggagcttgtaatgaattacatattagcattttctgaactgtatgttatggttttggtgatctacagTGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGTCTAAAATTCCAGAAGAAGTCAGACAGGAGATAGGATCTTATTTTGTGGATTCTGATCCAATT

Basic information

species Glycine max
transcript GLYMA17G12940.2
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|193355071|gb|FK321266.1|FK321266
EST:     TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAG                         TGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGT
genomic: TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAGgtagaaatca ... tgatctacagTGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGT
EST: gi|193431146|gb|FK394596.1|FK394596
EST:     TGGGTTT-ACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAG                         TGTTTGGGTCATGATGAATAAGCTGACACGGAGG
genomic: TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAGgtagaaatca ... tgatctacagTGTTTGGGTCATGATGAATAAGCTGACACGGAGG
EST: gi|193434416|gb|FK398874.1|FK398874
EST:     TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAG                         TGTTTGGGTCATGATGAATAAGCTGACAACGGAGGCTGT
genomic: TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAGgtagaaatca ... tgatctacagTGTTTGGGTCATGATGAATAAGCTGACA-CGGAGGCTGT
EST: gi|193431669|gb|FK395175.1|FK395175
EST:     TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAG                         TGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGT
genomic: TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAGgtagaaatca ... tgatctacagTGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGT
EST: gi|208180009|gb|GD975384.1|GD975384
EST:     TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAG                         TGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGTCTAAAATTCCAGA
genomic: TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAGgtagaaatca ... tgatctacagTGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGTCTAAAATTCCAGA
EST: gi|193396004|gb|FK361423.1|FK361423
EST:     TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAG                         TGTTTGGGTCATGATGAATAAGCTGACACGGAGG
genomic: TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAGgtagaaatca ... tgatctacagTGTTTGGGTCATGATGAATAAGCTGACACGGAGG
EST: gi|193366300|gb|FK330259.1|FK330259
EST:     TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAG                         TGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGT
genomic: TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAGgtagaaatca ... tgatctacagTGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGT
EST: gi|193423414|gb|FK391083.1|FK391083
EST:     TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAG                         TGTTTGGGTCATGATGAATAAGCTGACACGGAG-CTGT
genomic: TGGGTTTTACGTGACTGCAAAACTGGTGAAATCTTGACAAGAGCTTCCAGgtagaaatca ... tgatctacagTGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaattacatattagcattttctgaactgtatgttatggttttggtgatctacagTGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGTCTAAAATTCCAGAAGAAGTCAGACAGGAGATAGGATCTTATTTTGTGGATTCTGATCCAATT
     tacatatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcagactttatcatgtgtactgatgcatcaccttggagcttgtaatgaattacatattagcattttctgaactgtatgttatggttttggtgatctacagTGTTTGGGTCATGATGAATAAGCTGACACGGAGGCTGTCTAAAATTCCAGAAGAAGTCAGACAGGAGATAGGATCTTATTTTGTGGATTCTGATCCAATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT