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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattttatgcacatgaatatgtcctttctaaaattttatcactttcctatataattaactaacttcccttttcttttaacttcctgcttcttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAGAGTTTGCTACAAGCAAGGGGTGTTAATTGGACATCTATAAGGCCAGTCT

Basic information

species Glycine max
transcript GLYMA03G38930.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G38930.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G09340.1 (Arabidopsis thaliana), 3'ss of exon 6
---------------------------------------------------------aattttatgcacatgaatatgtcctttctaa--aattttatcactttcctatataattaactaacttc--ccttttcttttaacttcctgcttc-----ttggtgat--agACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAGAGTTTGCTACAAGCAAGGGGTGTTAATTGGACATCTATAAGGCCAGTCT
                                                         ||||      | |  | ||||    |   |    ||  ||| |  |  |     | || | || ||    || ||| |  ||||||  |  ||      |   ||||  ||   |||||||||||||| |||||||| |||||||| ||||| ||||| ||||| || || ||| |||  ||||| || ||||| |||||| | || ||||
gtatgtaaaagatatcttattcttattcctggaagatatgagcttgtacttttcttgaattagccatagaatagtatgattatgtaatttgatcatatgatgtcacccagaagtttattatctaaggccatttgtaataactttttatttgggacataactgatgcagGAGGATGCAGTTGATCCGAAGAGCAGGCACAAGGGGAAGCTGGAGACTGAGAGCTTACTGCAATCAAAAGGTGTAAACTGGACTTCTATACGTCCTGTCT

upper sequence: GLYMA03G38930.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv14s0060g00820.t01 (Vitis vinifera), 3'ss of exon 6
-----aattttatgcacatgaatatgtcctttctaaaattttatcactttcctatataattaactaacttcccttttcttttaacttcctgcttcttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAGAGTTTGCTACAAGCAAGGGGTGTTAATTGGACATCTATAAGGCCAGTCT
     || |||   ||  |   | | |||| || || | | | |      ||| |    |  | |   |     || ||  | || |  || |   | ||| ||||| ||||||||||| || |||||||| |||||||| ||||| ||||||||||| |||||  |  ||||||||||||| ||||| ||||||||||| ||||
ctgcaaacttt---catgttcttttttcctctccaatactatgttttccccctttgcc-tagaatttttcgatattactgctgacctgttggtggcttgtg-tagACCGATGCAGTTGACCCAAAGAGCAGGCACAAGGGGAAGCTCGAGACAGAGAGCTTGCTGGATTCAAGGGGTGTTAACTGGACTTCTATAAGGCCTGTCT
















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|192321048|gb|FK012416.1|FK012416
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|120534298|gb|EH262431.1|EH262431
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|192311714|gb|FK003575.1|FK003575
EST:     CAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: CAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|120534123|gb|EH262256.1|EH262256
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|209697177|gb|BW672942.1|BW672942
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAG
EST: gi|10232858|gb|BE801746.1|BE801746
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACATTGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|19271086|gb|BM887342.1|BM887342
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|120496123|gb|EH224290.1|EH224290
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|213608598|gb|DB967101.1|DB967101
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGA
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGA
EST: gi|120531123|gb|EH259256.1|EH259256
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAACGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|13562783|gb|BG551003.1|BG551003
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|209721697|gb|BW682538.1|BW682538
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTG
EST: gi|209701640|gb|BW673126.1|BW673126
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAG
EST: gi|151403281|gb|EV273091.1|EV273091
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|213594012|gb|DB961928.1|DB961928
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|120531139|gb|EH259272.1|EH259272
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|120530457|gb|EH258590.1|EH258590
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|9258206|gb|BE346353.1|BE346353
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|15199948|gb|BI424091.1|BI424091
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGG
EST: gi|209709384|gb|BW668340.1|BW668340
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAG
EST: gi|213601152|gb|DB964659.1|DB964659
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|209728486|gb|BW663478.1|BW663478
EST:     GCTCTTCTGCCGGTGTCTATCTCAGATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|209718791|gb|BW671992.1|BW671992
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|13252610|gb|BG363513.1|BG363513
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|11413480|gb|BF425491.1|BF425491
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAAGGANAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|20811439|gb|BQ295917.1|BQ295917
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|22541846|gb|BU091689.1|BU091689
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|209715908|gb|BW650921.1|BW650921
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|6134475|gb|AW132868.1|AW132868
EST:     GCTCTTCTGCCGGTGTCTATCTCANATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|5058545|gb|AI737021.1|AI737021
EST:     GCTCTTCTGCCGGTGTCTATCTCANATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|192311713|gb|FK003574.1|FK003574
EST:     CAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: CAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
EST: gi|213589232|gb|DB957764.1|DB957764
EST:     CTNCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGA
genomic: CT-CTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGA
EST: gi|209721137|gb|BW665694.1|BW665694
EST:     GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAG                         ACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG
genomic: GCTCTTCTGCCGGTGTCTATCTCAAATCTGATCTATTACCTCACGCAGAGgtcagtttac ... ttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctatataattaactaacttcccttttcttttaacttcctgcttcttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAGAGTTTGCTACAAGCAAGGGGTGTTAATTGGACATCTATAAGGCCAGTCT
             ctaacttcccttttct  CT-rich tract
     ataattaactaactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattttatgcacatgaatatgtcctttctaaaattttatcactttcctatataattaactaacttcccttttcttttaacttcctgcttcttggtgatagACTGATGCAGTTGATCCTAAGAGCAGACACAAGGGAAAGCTTGAGACAGAGAGTTTGCTACAAGCAAGGGGTGTTAATTGGACATCTATAAGGCCAGTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - -tatgcac
- - - - - - - - - - - - - - - - - - - -cactttc