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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtgttcactgctctttttttgttgcgttgaaatcaccacaaatattgaccgtaaaatatcttgttactattcaattttaatttgcagTACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGATTCGGAGATAGTTGACCGGAGAAACGGGCTGCGCAAACAGATTGAAGATA

Basic information

species Glycine max
transcript GLYMA20G35300.2
intron # 2
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|298191392|gb|HO038871.1|HO038871
EST:     CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATG                         TACTTTCCGAAGAATG
genomic: CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATGgtctgtgttc ... taatttgcagTACTTTCCGAAGAATG
EST: gi|298191906|gb|HO035988.1|HO035988
EST:     CTTACCCTGACCAGCTTTCCGCTCCCAAAAAGGATCTTCAATATGTCATG                         TACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGAT
genomic: CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATGgtctgtgttc ... taatttgcagTACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGAT
EST: gi|26269006|gb|CA820069.1|CA820069
EST:     CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATG                         TACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGAT
genomic: CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATGgtctgtgttc ... taatttgcagTACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGAT
EST: gi|37995190|gb|CF806779.1|CF806779
EST:     CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATG                         TACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGAT
genomic: CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATGgtctgtgttc ... taatttgcagTACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGAT
EST: gi|17963780|gb|BM270525.1|BM270525
EST:     CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATG                         TACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGT
genomic: CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATGgtctgtgttc ... taatttgcagTACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGT
EST: gi|37994097|gb|CF805843.1|CF805843
EST:     CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATG                         TACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACC
genomic: CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATGgtctgtgttc ... taatttgcagTACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACC
EST: gi|193521200|gb|FK480311.1|FK480311
EST:     CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATG                         TACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGAT
genomic: CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATGgtctgtgttc ... taatttgcagTACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGAT
EST: gi|193515937|gb|FK475963.1|FK475963
EST:     TTACCCTGACCAGTTTTCCGCTCTCAAAAAAGGATCTTCAATATGTCATG                         TACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGAT
genomic: TTACCCTGACCAGCTTTCCGCTCTCAAAAA-GGATCTTCAATATGTCATGgtctgtgttc ... taatttgcagTACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGAT
EST: gi|208091199|gb|GD886710.1|GD886710
EST:     CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATG                         TACTTTCCGAAGAATGAGAAATATGTGCCTTTGTT-ACCGGCGGTGATGAT
genomic: CTTACCCTGACCAGCTTTCCGCTCTCAAAAAGGATCTTCAATATGTCATGgtctgtgttc ... taatttgcagTACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaccacaaatattgaccgtaaaatatcttgttactattcaattttaatttgcagTACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGATTCGGAGATAGTTGACCGGAGAAACGGGCTGCGCAAACAGATTGAAGATA
                   taaaatatcttgttac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgtgttcactgctctttttttgttgcgttgaaatcaccacaaatattgaccgtaaaatatcttgttactattcaattttaatttgcagTACTTTCCGAAGAATGAGAAATATGTGCCTTTGTTTACCGGCGGTGATGATTCGGAGATAGTTGACCGGAGAAACGGGCTGCGCAAACAGATTGAAGATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA