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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACCGGAATACTTGAATCACTGAGAAGAAGAGCAAGGATAATGACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaatagtattccaaaacaatttcatatgttctcgtgcttcaatttcaatctttgattgcctcgtacaacatttgtcattcctcaagtttttgttcag

Basic information

species Glycine max
transcript GLYMA02G04320.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G04320.3 (Glycine max), 5'ss of exon 12
lower sequence: AT1G23310.2 (Arabidopsis thaliana), 5'ss of exon 12
CACCGGAATACTTGAATCACTGAGAAGAAGAGCAAGGATAATGACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaatagtattccaaaacaatttcatatgttctcgtgcttcaatttcaatctttgattgcctcgtacaacatttgtcattcctcaagtttttgttcag-------
||  || || ||||||||  ||||||||||||||||| | ||||| |||||||||||||| |||| ||| || || || ||||| || ||||||| |||||||| |      || |||||      |  |  ||||         ||| |  || |   |  |     | |||  || | | || | || ||  |        
CAAGGGGATTCTTGAATCTTTGAGAAGAAGAGCAAGGCTCATGACAGATGGATTCAACAGCTGCAAAAACGTCGTGTGCAATTTCACAGAAGgta-aaacaataatg-----aagcaatta-----gcacctgtgcagtgtagaaaatttgggagtatatgttgttgaagttg--atcctttaattcttggtgtaaatgttag
















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|209717502|gb|BW654405.1|BW654405
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|120490930|gb|EH219097.1|EH219097
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|120495674|gb|EH223841.1|EH223841
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|120529136|gb|EH257270.1|EH257270
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|120493898|gb|EH222065.1|EH222065
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|31471775|gb|CD413803.1|CD413803
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|23064228|gb|BU579001.1|BU579001
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|213594117|gb|DB981417.1|DB981417
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|23064069|gb|BU578842.1|BU578842
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|120534088|gb|EH262221.1|EH262221
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGNCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|14990047|gb|BI315720.1|BI315720
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|120529217|gb|EH257351.1|EH257351
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|31475863|gb|CD417891.1|CD417891
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|31465137|gb|CD407165.1|CD407165
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|22522821|gb|BU081632.1|BU081632
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|6667735|gb|AW279186.1|AW279186
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|20813120|gb|BQ297598.1|BQ297598
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGTTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|22525567|gb|BU084378.1|BU084378
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACG
EST: gi|120495271|gb|EH223438.1|EH223438
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|13481734|gb|BG511077.1|BG511077
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTNTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGC
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGC
EST: gi|31467900|gb|CD409928.1|CD409928
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|31475761|gb|CD417789.1|CD417789
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|7639756|gb|AW734072.1|AW734072
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|120494927|gb|EH223094.1|EH223094
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|13481252|gb|BG510595.1|BG510595
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGTTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|23735380|gb|BU765969.1|BU765969
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|31461996|gb|CD404024.1|CD404024
EST:     TTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: TTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|120493211|gb|EH221378.1|EH221378
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|13481701|gb|BG511044.1|BG511044
EST:     GACTGATGGA-TCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|213600111|gb|DB979774.1|DB979774
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|16349405|gb|BI975000.1|BI975000
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG
EST: gi|20812986|gb|BQ297464.1|BQ297464
EST:     GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAG                         GTGCCATGTATTCATTCCCTCAAATACGTTTGCCGCCAAGAGCTTTAGAGG
genomic: GACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaa ... ttttgttcagGTGCCATGTATTCATTCCCTCAAATACGCTTGCCGCCAAGAGCTTTAGAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACCGGAATACTTGAATCACTGAGAAGAAGAGCAAGGATAATGACTGATGGATTCAACAGTTGCAGAAATGTGGTTTGTAATTTTACTGAAGgtataaacaatagtattccaaaacaatttcatatgttctcgtgcttcaatttcaatctttgattgcctcgtacaacatttgtcattcctcaagtttttgttcag

- - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG