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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAGCAAAGGTTGCTCCGGCGGGGTTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacgtgactctgttcttattacacgcaaaaaacaacctatgattgtgtcgtgtgctcctgttctgtgtctcttacgttccctaagcttaaacttttaaccacttaacagatagacttcatgtgtggctgtgatcgttccgagtgttgaaattacggttttgtccttttccttttctgatgcag

Basic information

species Glycine max
transcript GLYMA13G24360.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G24360.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G070605_T01 (Zea mays), 5'ss of exon 2
AGAAGCAAAGGTTGCTCCGGCGGGGTTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacgtgactctgttcttattacacgcaaaaaacaacctatgattgtgt---cgtgtgctcctgttctgtgtctcttacgttccctaagcttaaacttttaaccacttaacagatagacttcatgtgtggctgtgatcgttccgagtgttgaaattacggttttgtccttttccttttctgatgcag
        |||      | | ||| ||  | |||||||| ||||| ||||| || || ||||||||||||| |||||||||    ||  ||| | |  |||     ||  |      || |   |||||   | || ||| |||                                                                                                                           
------GGAGGCCAAGTCTGTGGGTTTCCTGGAGAAGTACCCGGCCCTGGTCACTGGCTTCTTCTTCTTCATGTGgtacgtt---tgtttctctgcacatttgcttcatcacctgttctgtc-ctgtgtaaacatgggcttctgcag------------------------------------------------------------------------------------------------------------------------
















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|209715702|gb|BW674363.1|BW674363
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|7326908|gb|AW620706.1|AW620706
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|15287940|gb|BI471831.1|BI471831
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|209724251|gb|BW662892.1|BW662892
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGA
EST: gi|15664239|gb|BI701610.1|BI701610
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|26056377|gb|CA799291.1|CA799291
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|213594399|gb|DB973640.1|DB973640
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|22524479|gb|BU083290.1|BU083290
EST:     CCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: CCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|20076102|gb|BQ094885.1|BQ094885
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAATAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|31561929|gb|CD487767.1|CD487767
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|10845918|gb|BF068938.1|BF068938
EST:     CGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: CGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|120530166|gb|EH258300.1|EH258300
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTTCAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|209725000|gb|BW659746.1|BW659746
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACACCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|22524883|gb|BU083694.1|BU083694
EST:     TCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|20449743|gb|BQ253867.1|BQ253867
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|209710025|gb|BW653532.1|BW653532
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|15338168|gb|BI498832.1|BI498832
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|9564410|gb|BE473919.1|BE473919
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|5760087|gb|AI965450.1|AI965450
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|8404364|gb|BE059998.1|BE059998
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|17964192|gb|BM270931.1|BM270931
EST:     CCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: CCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|13481992|gb|BG511335.1|BG511335
EST:     ACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: ACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|209707100|gb|BW683287.1|BW683287
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|23057815|gb|BU578270.1|BU578270
EST:     CTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: CTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|209721962|gb|BW669348.1|BW669348
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|9819687|gb|BE555200.1|BE555200
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|31560884|gb|CD486722.1|CD486722
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|12774829|gb|BG239777.1|BG239777
EST:     ATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: ATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|20448949|gb|BQ253073.1|BQ253073
EST:     CCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: CCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|17023242|gb|BM094276.1|BM094276
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|9900710|gb|BE609678.1|BE609678
EST:     CGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: CGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|20449432|gb|BQ253556.1|BQ253556
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|213615016|gb|DB957054.1|DB957054
EST:     TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: TTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
EST: gi|26048112|gb|CA784701.1|CA784701
EST:     ATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTG                         GTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA
genomic: ATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacg ... tctgatgcagGTACTTCTTGAACGTGATTTTCAACATCCTTAACAAGAAGATCTACAATTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAAGCAAAGGTTGCTCCGGCGGGGTTTTTCGAGAAGTATCCGGCTCTGGTGACCGGATTCTTCTTCTTCACGTGgtacgtcacgtgactctgttcttattacacgcaaaaaacaacctatgattgtgtcgtgtgctcctgttctgtgtctcttacgttccctaagcttaaacttttaaccacttaacagatagacttcatgtgtggctgtgatcgttccgagtgttgaaattacggttttgtccttttccttttctgatgcag

- - - - - - - - - - - - - - - - AGAAGT