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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCTACTGAAGAGGTTTTGGTTGATGAAATCACTTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgcttatatcctctacttgaaactaggttcctaccctgctcttctatttatttttttcttaatttgattttgaagatgggatgaggtctatatt...

Basic information

species Glycine max
transcript GLYMA04G40030.1
intron # 2
splice site 5'
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|15815653|gb|BI787928.1|BI787928
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|254342752|gb|GR858914.1|GR858914
EST:     AGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: AGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|298179554|gb|HO028025.1|HO028025
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|192305625|gb|FG994335.1|FG994335
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|58020389|gb|CX707131.1|CX707131
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|151404578|gb|EV274392.1|EV274392
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|26268875|gb|CA819938.1|CA819938
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|151393172|gb|EV263047.1|EV263047
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|193362524|gb|FK325334.1|FK325334
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAA
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAA
EST: gi|9901324|gb|BE610292.1|BE610292
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|298168598|gb|HO009528.1|HO009528
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|192327228|gb|FK019535.1|FK019535
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|298194360|gb|HO041008.1|HO041008
EST:     TTACCCTTCCAAAATCACTACTACCAATCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGATATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|254320382|gb|GR826399.1|GR826399
EST:     TTA-CCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|254320381|gb|GR826398.1|GR826398
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|7588785|gb|AW704573.1|AW704573
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|298186723|gb|HO037356.1|HO037356
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|192302412|gb|FG997352.1|FG997352
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|151394357|gb|EV264228.1|EV264228
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|21285634|gb|BQ473505.1|BQ473505
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
EST: gi|254342751|gb|GR858913.1|GR858913
EST:     TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATG                         GAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG
genomic: TTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgct ... gtttgaccagGAATCACCGACATGGAGATCCACTTTATCCATGTGAAATTCTATTCAATCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGCTACTGAAGAGGTTTTGGTTGATGAAATCACTTACCCTTCCAAGATCACTACTACCAAGCCCCTATCTTTGCTTGGCCATGgtaagttgcttatatcctctacttgaaactaggttcctaccctgctcttctatttatttttttcttaatttgattttgaagatgggatgaggtctatatt

- - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctaccc