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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGAgttagttttgtcgattctctcctttctttcctaaaatgcttatgcttcagaaagaagcattcatttttatgtctttgtttcag

Basic information

species Glycine max
transcript GLYMA01G43470.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G43470.5 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os01g48910.1 (Oryza sativa), 5'ss of exon 7
CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGAgttagttttgtcgattctctcctttctttcctaaaatgct-tatgcttcagaaagaagcattcatttt-tatgtctttgtttcag--
 |  | ||||||||||||||||||||||||||| | |||||| ||||     |||| |||  |  ||||  || |  |||  |   ||    | |    | | || |  |||   ||||||| |   
GTGCTCAAGACATTTCCAAATGCAACAAAGTATTTGAAGAgtaagttg----gattttcttttccctttgttacagggctacaatgttttttatgctttactgatatgatattattttgttttaaag
















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|19346911|gb|BM891799.1|BM891799
EST:     CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGA                         CAATTGTAAGCTTCGGAAAGGTTACCCCTGAACAAAAGCAAGAAGTTGAAA
genomic: CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGAgttagttttg ... tttgtttcagCAATTGTAAGCTTCGGAAAGGTTACCCCTGAACAAAAGCAAGAAGTTGAAA
EST: gi|209718138|gb|BW657797.1|BW657797
EST:     CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGA                         CAATTGTAAGCTTCGGAAAGGTTACCCCTCGAACAAA-GCAAGAAGTTGAA
genomic: CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGAgttagttttg ... tttgtttcagCAATTGTAAGCTTCGGAAAGGTTACCCCT-GAACAAAAGCAAGAAGTTGAA
EST: gi|308097989|gb|HO761160.1|HO761160
EST:     CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGA                         CAATTGTAAGCTTCGGAAAGGTTACCCCTGAACAAAAGCAAGAAGTTGAAA
genomic: CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGAgttagttttg ... tttgtttcagCAATTGTAAGCTTCGGAAAGGTTACCCCTGAACAAAAGCAAGAAGTTGAAA
EST: gi|193465110|gb|FK432015.1|FK432015
EST:     CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGA                         CAATTTGTAAGCTTCGGAAAGGTTACCCCTGAACAAAAGCAAGAAGTTGAA
genomic: CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGAgttagttttg ... tttgtttcagCAATT-GTAAGCTTCGGAAAGGTTACCCCTGAACAAAAGCAAGAAGTTGAA
EST: gi|209718875|gb|BW669062.1|BW669062
EST:     CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGA                         CAATTGTAAGCTTCGGAAAGGTTACCCCTGAACAAAAGCAAGAAGTTGAAA
genomic: CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGAgttagttttg ... tttgtttcagCAATTGTAAGCTTCGGAAAGGTTACCCCTGAACAAAAGCAAGAAGTTGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTATTGAAGACATTTCCAAATGCAACAAAGTATCTCAAGAgttagttttgtcgattctctcctttctttcctaaaatgcttatgcttcagaaagaagcattcatttttatgtctttgtttcag

-  TTGAAG
- - TGAAGA