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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aggagttccttttgtgattctctctttcttatttgctttgggtattgtttgtgatatatattgtggccttagaatttaccctcattttatcatccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTCGAGCTGAG

Basic information

species Glycine max
transcript GLYMA20G03010.1
intron # 6
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|12772153|gb|BG237080.1|BG237080
EST:     ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTG                         ATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
genomic: ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTGgtatgttttc ... catccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
EST: gi|51335202|gb|CO979068.1|CO979068
EST:     ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTG                         ATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
genomic: ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTGgtatgttttc ... catccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
EST: gi|254327608|gb|GR840172.1|GR840172
EST:     ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTG                         ATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
genomic: ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTGgtatgttttc ... catccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
EST: gi|192302417|gb|FG995901.1|FG995901
EST:     ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTG                         ATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
genomic: ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTGgtatgttttc ... catccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
EST: gi|192302416|gb|FG995900.1|FG995900
EST:     ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTG                         ATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACT-C
genomic: ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTGgtatgttttc ... catccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
EST: gi|31473030|gb|CD415058.1|CD415058
EST:     ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTG                         ATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
genomic: ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTGgtatgttttc ... catccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
EST: gi|214005563|gb|DB984571.1|DB984571
EST:     ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTG                         ATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
genomic: ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTGgtatgttttc ... catccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
EST: gi|214005434|gb|DB984913.1|DB984913
EST:     ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTG                         ATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
genomic: ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTGgtatgttttc ... catccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
EST: gi|214005323|gb|DB988871.1|DB988871
EST:     ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTG                         ATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
genomic: ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTGgtatgttttc ... catccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
EST: gi|254327607|gb|GR840171.1|GR840171
EST:     ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTG                         ATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC
genomic: ATTTCAACAGCTGGCAAAATCAGCATACAAGGTTGAAACCCGAGCTGCTGgtatgttttc ... catccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttgtgatatatattgtggccttagaatttaccctcattttatcatccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTCGAGCTGAG
                                       ttttatcatccttc  CT-rich tract
      tgatatatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aggagttccttttgtgattctctctttcttatttgctttgggtattgtttgtgatatatattgtggccttagaatttaccctcattttatcatccttcagATTTGCTTGACAAGCTGCGGTATATACCTAGTCGTGAAGCTCTGGCACTTCGAGCTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - -ccttttg
- - - - - - - - - - - - - - - - - gctttgg
- - - - - - - - - - - - - - - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgtggc