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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtcaacttcgtatcctttcgttcttcgcgattttttttcacggttcatgcatgcatcgcggttataacgtgtttgatttctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCTCGGTCGCCGCGCCAA

Basic information

species Glycine max
transcript GLYMA18G47670.1
intron # 1
splice site 3'
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|192325593|gb|FK019449.1|FK019449
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCC
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|209723553|gb|BW672203.1|BW672203
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|193416691|gb|FK383251.1|FK383251
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|19935787|gb|BQ080586.1|BQ080586
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|19935946|gb|BQ080653.1|BQ080653
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|19938471|gb|BQ081735.1|BQ081735
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|209709461|gb|BW668377.1|BW668377
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|193672427|gb|FK617187.1|FK617187
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|19934369|gb|BQ079399.1|BQ079399
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|213605011|gb|DB956358.1|DB956358
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|298173171|gb|HO020155.1|HO020155
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCCCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|254344439|gb|GR851136.1|GR851136
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCT
EST: gi|193435126|gb|FK400270.1|FK400270
EST:     ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCA                         GGATTCTCTCGTTC
genomic: ATTTTCCTTCTGTTCTCCTTATTCTTCAGCCTCTCACCGACCTTCGCTCAggtcaacttc ... tctatgtgcaGGATTCTCTCGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttcacggttcatgcatgcatcgcggttataacgtgtttgatttctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCTCGGTCGCCGCGCCAA
                                           tttctat  CT-rich tract
                                      tttgattt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtcaacttcgtatcctttcgttcttcgcgattttttttcacggttcatgcatgcatcgcggttataacgtgtttgatttctatgtgcaGGATTCTCTCGTTCAGAACGCGAAGGAAGATTCCGGCGGATCTGTGGATCTCGGTCGCCGCGCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA