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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaactggtgtttagttcgtctttgaggggcgaagtatcatacagttccaagtagttaagtaaatgatggccttactgtttctggaaaccatttccgcagAGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT

Basic information

species Glycine max
transcript GLYMA19G35980.3
intron # 2
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|213619830|gb|DB969494.1|DB969494
EST:     TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAG                         AGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
genomic: TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAGgtaattccct ... atttccgcagAGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
EST: gi|193520548|gb|FK475109.1|FK475109
EST:     TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAG                         AGTTCGAGGTGTGGATATGAAGAATG
genomic: TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAGgtaattccct ... atttccgcagAGTTCGAGGTGTGGATATGAAGAATG
EST: gi|208106711|gb|GD906528.1|GD906528
EST:     TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAG                         AGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
genomic: TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAGgtaattccct ... atttccgcagAGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
EST: gi|15286621|gb|BI470512.1|BI470512
EST:     TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAG                         AGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
genomic: TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAGgtaattccct ... atttccgcagAGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
EST: gi|213599416|gb|DB970364.1|DB970364
EST:     TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAG                         AGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
genomic: TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAGgtaattccct ... atttccgcagAGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
EST: gi|209715287|gb|BW654174.1|BW654174
EST:     TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCCTTAGCAGATATGGAAG                         AGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
genomic: TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAGgtaattccct ... atttccgcagAGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
EST: gi|298181985|gb|HO026160.1|HO026160
EST:     TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAG                         AGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
genomic: TCGAGGACTCGTTCCCGTGATCTGGAGCGTGCCTTTAGCAGATATGGAAGgtaattccct ... atttccgcagAGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccaagtagttaagtaaatgatggccttactgtttctggaaaccatttccgcagAGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT
                        gccttac  putative branch site (score: 3)
                                           ccatttcc  putative PPT
          ttaagtaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caaactggtgtttagttcgtctttgaggggcgaagtatcatacagttccaagtagttaagtaaatgatggccttactgtttctggaaaccatttccgcagAGTTCGAGGTGTGGATATGAAGAATGATTTCGCTTTTGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA