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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtctatgcatatagtggtttttatatatactcggcttgctctgcatgtggcttgctttggcatcgattaatatgactgtttgtttggtttctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAAGCAACGAACTTTCCAACATCTGAAGAAATTAGCACACTGATTAATCCCT

Basic information

species Glycine max
transcript GLYMA17G34140.1
intron # 3
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|151412709|gb|EV282521.1|EV282521
EST:     ACTGATCTCTACAACTTCATAGATGGTCTTGCAGACATGAGTGCCCTAGT                         GTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
genomic: ACTGATCTCTACAACTTCATAGATGGTCTTGCAGACATGAGTGCCCTAGTgtatgtccct ... ctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
EST: gi|207769176|gb|GD741532.1|GD741532
EST:     CATAGATGGTTCTTTGTCAGACATGAGTGCCCTAGT                         GTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
genomic: CATAGATGG-TC-TTG-CAGACATGAGTGCCCTAGTgtatgtccct ... ctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
EST: gi|298179039|gb|HO024774.1|HO024774
EST:     ACTGATCTCTACAACTTCATAGATGGTCTTGCAGACATGAGTGCCCTAGT                         GTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
genomic: ACTGATCTCTACAACTTCATAGATGGTCTTGCAGACATGAGTGCCCTAGTgtatgtccct ... ctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
EST: gi|254316378|gb|GR827915.1|GR827915
EST:     ACTGATCTCTACAACTTCATAGATGGTCTTGCAGACATGAGTGCCCTAGT                         GTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
genomic: ACTGATCTCTACAACTTCATAGATGGTCTTGCAGACATGAGTGCCCTAGTgtatgtccct ... ctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
EST: gi|207686127|gb|GD669963.1|GD669963
EST:     CATAGATGGTCTTGCAGACATGAGTGCCCTAGT                         GTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
genomic: CATAGATGGTCTTGCAGACATGAGTGCCCTAGTgtatgtccct ... ctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
EST: gi|6095119|gb|AW119786.1|AW119786
EST:     CTGATCTCTACCACTTTATAGATGGCCCTTGCAGACATGAGTGCCCTAGT                         GTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
genomic: CTGATCTCTACAACTTCATAGATGG-TCTTGCAGACATGAGTGCCCTAGTgtatgtccct ... ctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
EST: gi|254329083|gb|GR833455.1|GR833455
EST:     ACTGATCTCTACAACTTCATAGATGGTCTTGCAGACATGAGTGCCCTAGT                         GTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
genomic: ACTGATCTCTACAACTTCATAGATGGTCTTGCAGACATGAGTGCCCTAGTgtatgtccct ... ctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
EST: gi|298180160|gb|HO025375.1|HO025375
EST:     ACTGATCTCTACAACTTCATAGATGGTCTTGCAGACATGAGTGCCCTAGT                         GTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
genomic: ACTGATCTCTACAACTTCATAGATGGTCTTGCAGACATGAGTGCCCTAGTgtatgtccct ... ctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
EST: gi|207844455|gb|GD813506.1|GD813506
EST:     CATAGATGGTCTTGCAGACATGAGTGCCCTAGT                         GTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA
genomic: CATAGATGGTCTTGCAGACATGAGTGCCCTAGTgtatgtccct ... ctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtggcttgctttggcatcgattaatatgactgtttgtttggtttctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAAGCAACGAACTTTCCAACATCTGAAGAAATTAGCACACTGATTAATCCCT
                   gattaat  putative branch site (score: 3)
                                          tttctacct  putative PPT
                    attaatatga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctatgcatatagtggtttttatatatactcggcttgctctgcatgtggcttgctttggcatcgattaatatgactgtttgtttggtttctacctgcagGTATGATAGTTCAATTCACGCTTACATGCCGCACGATCGACAGTGGATTAAGCAACGAACTTTCCAACATCTGAAGAAATTAGCACACTGATTAATCCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - -tgcatat
- - - - - - agtggtt
- - - - - - - - - - - - - - - - - - - ctctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgt