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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTAGGTGACGAATTGCATCACACAGGCTGGAATTCATGCAGCTCTTGCCATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatccttaccttccctcaactcaactatataaatctaaaaggacatttcattcatacttttataaagtttatcagaaagagagtatatataatc...

Basic information

species Glycine max
transcript GLYMA18G00590.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G00590.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM5G837351_T01 (Zea mays), 5'ss of exon 2
ATTTAGGTGACGAATTGCATCACACAGGCTGGAAT-TCATGCAGCTCTTGCCATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatccttaccttccctcaactcaactatataaatctaaaaggacatttcattcatacttttataaagtttatcagaaagagagtatatataatc
           | | || |    ||| |||||| |  | |||| |  | |   ||||    || |  |   || ||    || ||    | |  ||  | | |  || | ||  | |  |       | | ||  || | |||    |||    || | ||    ||   |  ||    ||  |  | || ||        
-----------GCACTGGAATTAACAAGCTGGATTACCTTGCAACGATGGATTTGGA----CCCCGACTCTCCTACATACTCCCAGgtgatccacaggc-tctcagtcacccacatcggc-----gatgagctgcatcactctggctggaa--ctcgtgcagctcttgccatggtgatccatcagcaaagcatc-------
















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|213615413|gb|DB965664.1|DB965664
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|213596491|gb|DB962051.1|DB962051
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|193477147|gb|FK439616.1|FK439616
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|209719087|gb|BW674875.1|BW674875
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|298163915|gb|HO013560.1|HO013560
EST:     CATGGAGATCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|209712694|gb|BW684624.1|BW684624
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|213610719|gb|DB961194.1|DB961194
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|193311948|gb|FK274794.1|FK274794
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|192327467|gb|FK017824.1|FK017824
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCGTC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|4289585|gb|AI438045.1|AI438045
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|308098254|gb|HO759995.1|HO759995
EST:     ACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: ACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|16995993|gb|BM085365.1|BM085365
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|213601718|gb|DB972426.1|DB972426
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|14990685|gb|BI316358.1|BI316358
EST:     CATGGAGACCCCTCATCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCATGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|9204378|gb|BE330602.1|BE330602
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|254325879|gb|GR838760.1|GR838760
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|192301362|gb|FG998382.1|FG998382
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|193322982|gb|FK287916.1|FK287916
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAAACAAATCCAAGGGCTCCAT
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTG-AAAACAAATCCAAGGGCTCCAT
EST: gi|254335972|gb|GR841297.1|GR841297
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|16995794|gb|BM085166.1|BM085166
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|209723717|gb|BW662585.1|BW662585
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|16995858|gb|BM085230.1|BM085230
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|298166003|gb|HO008974.1|HO008974
EST:     CATGGAGATCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|213611345|gb|DB972746.1|DB972746
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|213592648|gb|DB955806.1|DB955806
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTTCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|192323156|gb|FK017382.1|FK017382
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTGTATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|254329343|gb|GR833715.1|GR833715
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|208259206|gb|GE052474.1|GE052474
EST:     TCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTAGAAAACAAATCCAAGGGCTCCAT
genomic: TCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGT-GAAAACAAATCCAAGGGCTCCAT
EST: gi|209726198|gb|BW659563.1|BW659563
EST:     CATGGAGACCCCTCANCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|6567240|gb|AW234851.1|AW234851
EST:     CATGGAGATCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|193380536|gb|FK346982.1|FK346982
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|254347236|gb|GR853485.1|GR853485
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|18848557|gb|BM567731.1|BM567731
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|254322235|gb|GR837649.1|GR837649
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|213611956|gb|DB958938.1|DB958938
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
EST: gi|209726336|gb|BW659636.1|BW659636
EST:     CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGT                         ATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC
genomic: CATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatc ... catatatcagATCAGGTCGAGTATATGTGGTTGATGTGAAAACAAATCCAAGGGCTCCATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTAGGTGACGAATTGCATCACACAGGCTGGAATTCATGCAGCTCTTGCCATGGAGACCCCTCAGCAGACCGACGATTTCTCATCGTACCTGCACTCGTgtgtgtaatccttaccttccctcaactcaactatataaatctaaaaggacatttcattcatacttttataaagtttatcagaaagagagtatatataatc

- - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaagaga