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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGCATCTGTTGAAGAGGAATATGAAGCTGCTGGAGGGGAAGTTCTACTCGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtattatttgtattggactggaggcttgtatattgtgctttggctttaatccttttatcttatgcttttgcatttttcttcttctcaag

Basic information

species Glycine max
transcript GLYMA12G00830.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G00830.5 (Glycine max), 5'ss of exon 2
lower sequence: AT5G61500.1 (Arabidopsis thaliana), 5'ss of exon 3
GCTGCATCTGTTGAAGAGGAATATGAAGCTGCTGGAGGGGAAGTTCTACTCGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtattatttgtattggactggaggcttgtatattgtgctttggctttaatcct-tttatcttatgcttttgcatttttcttcttctcaag
||||| ||||| | |||||| ||||||||||||||||| |||||  |  | |||||||||||||||||||| ||||| || || ||||||||||| ||||| |  |    ||||||||    | |||  ||||   |      ||  |||   || | || | ||| ||  ||   ||||||   | |      
GCTGCTTCTGTGGCAGAGGATTATGAAGCTGCTGGAGGTGAAGTGTTGGTTGATGATGAAGATAATGATGGTTGGCTGGCTACACATGGGAAACCGAAAGgtacat----tttgtatt----tagagatttgtgcctctgaaattcacttatctcttattcaacttgtgtctt--gatttttggccatag----

upper sequence: GLYMA12G00830.5 (Glycine max), 5'ss of exon 2
lower sequence: EFJ14759 (Selaginella moellendorffii), 5'ss of exon 3
GCTGCATCTGTTGAAGAGGAATATGAAGCTGCTGGAGGGGAAGTTCTACTCGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtattatttgtattggactggaggcttgtatattgtgctttggctttaatccttttatcttatgcttttgcatttttcttcttctcaag
|| ||  |  ||||||||||||| | ||||||||| ||||||||| | |||||||  |||||    || ||||||||||| ||||| ||    ||    || |||  |  || || |    ||  ||  |||  |     | |   |                                              
GCGGCCGCGTTTGAAGAGGAATACGCAGCTGCTGGTGGGGAAGTTTTGCTCGATGGAGAAGACGGGGAAGGCTGGCTAGCGACTCACGGAGCTCCTGGGGgtatgc-tgtttcgtttctagctcaagttttgattgccaagttccag----------------------------------------------

upper sequence: GLYMA12G00830.5 (Glycine max), 5'ss of exon 2
lower sequence: EFJ26505 (Selaginella moellendorffii), 5'ss of exon 3
GCTGCATCTGTTGAAGAGGAATATGAAGCTGCTGGAGGGGAAGTTCTACTCGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtattatttgtattggactggaggcttgtatattgtgctttggctttaatccttttatcttatgcttttgcatttttcttcttctcaag
|| ||  |  ||||||||||||| | ||||||||| ||||||||| | |||||||  |||||    || || |||||||| ||||| ||    ||    || |||  |  || || |    ||   |  |||  |     | |   |                                              
GCGGCCGCGTTTGAAGAGGAATACGCAGCTGCTGGTGGGGAAGTTTTGCTCGATGGAGAAGACGGGGAAGGGTGGCTAGCGACTCACGGAGCTCCTGGGGgtatgc-tgtttcgtttctagctcatgttttgattgccaagttccag----------------------------------------------

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|298192494|gb|HO036576.1|HO036576
EST:     CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGGAACCCAAAG                         AAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
genomic: CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtatta ... tcttctcaagAAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
EST: gi|192330860|gb|FK021619.1|FK021619
EST:     CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAG                         AAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
genomic: CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtatta ... tcttctcaagAAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
EST: gi|213591644|gb|DB969744.1|DB969744
EST:     CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAGACCCAAAG                         AAACCAAATCTGATGAGGATGAAAATTTACCTTCCATGGAAAGCCTAGAAA
genomic: CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtatta ... tcttctcaagAAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
EST: gi|151408115|gb|EV277923.1|EV277923
EST:     CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAG                         AAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
genomic: CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtatta ... tcttctcaagAAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
EST: gi|192324977|gb|FK016133.1|FK016133
EST:     CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAG                         AAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
genomic: CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtatta ... tcttctcaagAAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
EST: gi|7684723|gb|AW755371.1|AW755371
EST:     CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAGACCCCAAG                         AAACCAAATCTGATGAGGATGAG
genomic: CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtatta ... tcttctcaagAAACCAAATCTGATGAGGATGAG
EST: gi|19346154|gb|BM891034.1|BM891034
EST:     CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAG                         AAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
genomic: CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtatta ... tcttctcaagAAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
EST: gi|298169552|gb|HO020912.1|HO020912
EST:     CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCGAAG                         AAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
genomic: CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtatta ... tcttctcaagAAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
EST: gi|298186631|gb|HO037264.1|HO037264
EST:     CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGGAACCCAAAG                         AAACCAAATCTGATGAGGATGAG
genomic: CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtatta ... tcttctcaagAAACCAAATCTGATGAGGATGAG
EST: gi|151404711|gb|EV274525.1|EV274525
EST:     CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAG                         AAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA
genomic: CGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtatta ... tcttctcaagAAACCAAATCTGATGAGGATGAGAATTTACCTTCCATGGAAAGCCTAGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTGCATCTGTTGAAGAGGAATATGAAGCTGCTGGAGGGGAAGTTCTACTCGATGATGAAGATAATGATGGCTGGCTAGCAACTCATGGGAAACCCAAAGgcatgtattatttgtattggactggaggcttgtatattgtgctttggctttaatccttttatcttatgcttttgcatttttcttcttctcaag

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