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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAAGACTGGTTATCATTAGTTGCTGTTCATAGTGATACATGGTTACTTGCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatcttactgagcttaactcttatatctcaagtcaacttgtaatgaagctgattcaagatgagattgaaaataaggaactaaggatgcagtttgg...

Basic information

species Glycine max
transcript GLYMA15G03160.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G03160.2 (Glycine max), 5'ss of exon 3
lower sequence: PP1S117_107V6.1 (Physcomitrella patens), 5'ss of exon 3
------AAAAAGACTGGTTATCATTAGTTGCTGTTCATAGTGATACATGGTTACTTGCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatat-atcttactg--agcttaactcttatatctcaagtcaacttgtaatgaagctgattcaagatgagattgaaaataaggaactaaggatgcagtttgg
        || |||||||| |||||||||||||| ||||||||| | ||| | |||||| | || ||||||| ||||||  |||| |      || |||   |  ||  ||  || || |||   ||     | |   |  |   |  ||| |  | | |  |||||  |  ||    |||   |   ||  ||     ||        
TGCAACGGAAGGACTGGTTGTCATTAGTTGCTGTCCATAGTGATGCGTGGCTGCTTGCCGTAGCGTTTTATTATGGAGCTCGATTCGACAAAAATGAAAGgtaagggcgtacgattttcctgttggcaatgttatgggaaatggtggtaacgta-agtaagactgatgaataattctgttgccgagttggccctgttagtg--------
















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|208029128|gb|GD830610.1|GD830610
EST:     GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|254328382|gb|GR835347.1|GR835347
EST:     TGATAAAACTGACAG                         GAAACGACTATCCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: TGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|193412355|gb|FK381282.1|FK381282
EST:     GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|208047792|gb|GD845225.1|GD845225
EST:     GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|298179019|gb|HO024754.1|HO024754
EST:     GCCCTTGCCTTTTATTTTGGGGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|208199039|gb|GD999448.1|GD999448
EST:     GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|298187488|gb|HO034637.1|HO034637
EST:     GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|298186535|gb|HO037168.1|HO037168
EST:     GCCCTTGCCTTTTATTTTGGAGCCGGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|298187535|gb|HO034684.1|HO034684
EST:     GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|151403173|gb|EV272983.1|EV272983
EST:     GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|193376061|gb|FK340032.1|FK340032
EST:     GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|193523158|gb|FK482653.1|FK482653
EST:     GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAA
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAA
EST: gi|209711281|gb|BW676479.1|BW676479
EST:     GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTTGT
EST: gi|207717586|gb|GD697716.1|GD697716
EST:     GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAG                         GAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGTAGTT
genomic: GCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatct ... tgtaatgcagGAAACGACTATTCGGTATGATCAATGAACTACCAACAATATTTGAAGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAAAGACTGGTTATCATTAGTTGCTGTTCATAGTGATACATGGTTACTTGCCCTTGCCTTTTATTTTGGAGCCAGATTTGGATTTGATAAAACTGACAGgtatatatcttactgagcttaactcttatatctcaagtcaacttgtaatgaagctgattcaagatgagattgaaaataaggaactaaggatgcagtttgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaataa