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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctcattttattttagctatttttctttgttctgtggtcctgccaacccaacttcagtatctctgatttccctggttaattaaatgtcctcttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG

Basic information

species Glycine max
transcript GLYMA05G29080.7
intron # 5
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|254327926|gb|GR834891.1|GR834891
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAT-G-G                         -AGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|208309137|gb|GE102061.1|GE102061
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGC
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGC
EST: gi|254328642|gb|GR833014.1|GR833014
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|254333165|gb|GR850415.1|GR850415
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAT-G-G                         -AGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|208055190|gb|GD853711.1|GD853711
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|10709621|gb|BF009345.1|BF009345
EST:     TCTGAGGGACAATCTCACCCTGTGGACGTCTGACATCCCTGAAGATGGAG                         CAGAAGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACTATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|254328641|gb|GR833013.1|GR833013
EST:     CTGAGGGACAATCTCACCCTGTGGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAG-TGGATTCT
genomic: CTGAGGGACAATCTCACCCTGTGG-ACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCT
EST: gi|208292547|gb|GE091163.1|GE091163
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         CAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|193614275|gb|FK565929.1|FK565929
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|13477504|gb|BG507360.1|BG507360
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|10846315|gb|BF069233.1|BF069233
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         CAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|207827519|gb|GD800742.1|GD800742
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAT-G-G                         -AGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|10846261|gb|BF069189.1|BF069189
EST:     ACTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         CAGATGAACAAAAGGTGGATTCTGCCCGAGCTGCTTGAGGTGACGATGCA
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCA
EST: gi|17022285|gb|BM093319.1|BM093319
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTTAAGATGGAG                         CAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|192309538|gb|FK000970.1|FK000970
EST:     TTTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|193666143|gb|FK612202.1|FK612202
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         CAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|193619419|gb|FK571287.1|FK571287
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         CAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|254335227|gb|GR846724.1|GR846724
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|193374759|gb|FK341279.1|FK341279
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGA
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGA
EST: gi|151402597|gb|EV272410.1|EV272410
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         CAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|31462734|gb|CD404762.1|CD404762
EST:     TCTGAGGGACTATCTCACCCTGTGGACTTCTGACATCCCTGAAGAT-G-G                         -AGAGGAACCTAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|208185797|gb|GD983822.1|GD983822
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGACCCGA
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTG-CCCGA
EST: gi|193564590|gb|FK521427.1|FK521427
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|193694809|gb|FK634265.1|FK634265
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAT-G-G                         -AGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|21638441|gb|BM139487.1|BM139487
EST:     CTGAGGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGG-G                         -AGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGG
genomic: CTGAGGG-ACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGG
EST: gi|193475413|gb|FK440248.1|FK440248
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|193518055|gb|FK473526.1|FK473526
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGAT
EST: gi|193449399|gb|FK412878.1|FK412878
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAA-GGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGC
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGC
EST: gi|6951823|gb|AW423891.1|AW423891
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|7795822|gb|AW781219.1|AW781219
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         CAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTTGAAGTGACGAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGAT
EST: gi|254335228|gb|GR846725.1|GR846725
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         -AG-G-AACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
EST: gi|254336493|gb|GR842672.1|GR842672
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         CAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcatta ... cttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acccaacttcagtatctctgatttccctggttaattaaatgtcctcttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG
                            ggttaat  putative branch site (score: 4)
                                       tgtcctctttt  putative PPT
                              ttaattaaatgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctcattttattttagctatttttctttgttctgtggtcctgccaacccaacttcagtatctctgatttccctggttaattaaatgtcctcttttaatagCAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGACGATGCATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG