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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacaaactggtgtttagttcgtctttgaggggcgaagtatcatacagttcaagtagttaagtaatgatggccttactgtttctggaaaccatttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT

Basic information

species Glycine max
transcript GLYMA03G33260.1
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|298189291|gb|HO037694.1|HO037694
EST:     TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAG                         AGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
genomic: TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAGgtaattcccc ... atttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
EST: gi|298170069|gb|HO018693.1|HO018693
EST:     TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAG                         AGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
genomic: TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAGgtaattcccc ... atttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
EST: gi|213589600|gb|DB965816.1|DB965816
EST:     TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAG                         AGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
genomic: TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAGgtaattcccc ... atttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
EST: gi|193404955|gb|FK374250.1|FK374250
EST:     TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAG                         AGTTCGGGGTGTGGATATGAAGAA
genomic: TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAGgtaattcccc ... atttccgcagAGTTCGGGGTGTGGATATGAAGAA
EST: gi|151403736|gb|EV273546.1|EV273546
EST:     TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAG                         AGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
genomic: TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAGgtaattcccc ... atttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
EST: gi|192324223|gb|FK017954.1|FK017954
EST:     TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAG                         AGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
genomic: TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAGgtaattcccc ... atttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
EST: gi|213597756|gb|DB960313.1|DB960313
EST:     TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAG                         AGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
genomic: TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAGgtaattcccc ... atttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
EST: gi|193406622|gb|FK375581.1|FK375581
EST:     TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAG                         AGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
genomic: TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAGgtaattcccc ... atttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
EST: gi|193478543|gb|FK447570.1|FK447570
EST:     TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAG                         AGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTTG
genomic: TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAGgtaattcccc ... atttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTTG
EST: gi|298193736|gb|HO040384.1|HO040384
EST:     TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAG                         AGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
genomic: TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAGgtaattcccc ... atttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
EST: gi|192334590|gb|FK025179.1|FK025179
EST:     TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAG                         AGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
genomic: TCGAGGACTCGTTCCCGGGATCTGGAGCGTGCCTTCAGCAGATATGGAAGgtaattcccc ... atttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttcaagtagttaagtaatgatggccttactgtttctggaaaccatttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT
                        gccttac  putative branch site (score: 3)
 ccatttcc  putative PPT
 ttaagtaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cacaaactggtgtttagttcgtctttgaggggcgaagtatcatacagttcaagtagttaagtaatgatggccttactgtttctggaaaccatttccgcagAGTTCGGGGTGTGGATATGAAGAATGATTTCGCCTTTGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
cacaaac
- - - -tggtgtt
- - - - - - - - - - - - -tgagggg
- - - - - - - - - - - - - - - - - - - -tcataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatggc