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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTCCTCATCACATATGTGGCTTTGAACTTGATGGATGGGCATGGTCAGCCAGCTTTGCTTTATATAGTCCCATTTACACTTGgcaagtataattaatcagactcatttaaatctaaagtagaaacacctatgatggcatgctggtgtgtaatctttacatttcatacttccctccatctgca...

Basic information

species Glycine max
transcript GLYMA03G01100.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G01100.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv15s0046g02460.t01 (Vitis vinifera), 5'ss of exon 13
GTCTCCTCATCACATATGTGGCTTTGAACTTGATGGATGGGCATGGTCAGCCAGCTTTGCTTTATATAGTCCCATTTACACTTGgcaagtataattaatcagactcatttaaatc---taaagtagaaacacctatgatggcatgctggtgtgtaatctttacatttcatacttccctccatctgca-
| |||||||||||||||||||| ||||||||||||||||||||||| || |||||| | || || || || ||||| ||||| || | |||    |||| | || |   | ||||   |  | |   ||  | | | |  ||      || | | |   ||   |||   ||| |  |      ||| 
GACTCCTCATCACATATGTGGCCTTGAACTTGATGGATGGGCATGGCCAACCAGCTCTACTCTACATTGTTCCATTCACACTCGgtatgtagtgataataatacgctaatgaatcattttcattcttaatgcttttcaaagc---taagtctatgagagtt-tgtttggcactgcttttggatagcac
















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|254319502|gb|GR829014.1|GR829014
EST:     GGATGGGCATGGTCAGCCAGCTTTGCTTTATATAGTCCCATTTACACTTG                         GCACCTTTTTGTCATTGGGAAAAAAGAGAGGGGAGCTCAAGATTTTATGGA
genomic: GGATGGGCATGGTCAGCCAGCTTTGCTTTATATAGTCCCATTTACACTTGgcaagtataa ... cctttttcagGCACCTTTTTGTCATTGGGAAAAAAGAGAGGGGAGCTCAAGATTTTATGGA
EST: gi|26059236|gb|CA802150.1|CA802150
EST:     GGATGGGCATGGTCAGCCAGCTTTGCTTTATATAGTCCCATTTACACTTG                         GCACCTTTTTGTCATTGGGAAAAAAGAGAGGGGAGCTCAAGATTTTATGGA
genomic: GGATGGGCATGGTCAGCCAGCTTTGCTTTATATAGTCCCATTTACACTTGgcaagtataa ... cctttttcagGCACCTTTTTGTCATTGGGAAAAAAGAGAGGGGAGCTCAAGATTTTATGGA
EST: gi|151409520|gb|EV279328.1|EV279328
EST:     GGATGGGCATGGTCAGCCAGCTTTGCTTTATATAGTCCCATTTACACTTG                         GCACCTTTTTGTCATTGGGAAAAAAGAGAGGGGAGCTCAAGATTTTATGGA
genomic: GGATGGGCATGGTCAGCCAGCTTTGCTTTATATAGTCCCATTTACACTTGgcaagtataa ... cctttttcagGCACCTTTTTGTCATTGGGAAAAAAGAGAGGGGAGCTCAAGATTTTATGGA
EST: gi|254319501|gb|GR829013.1|GR829013
EST:     GGATGGGCATGGTCAGCCAGCTTTGCTTTATATAGTCCCATTTACACTTG                         GCACCTTTTTGTCATTGG-AAAAAAGAGAGGGGAGCTCA-GATTTTATGGA
genomic: GGATGGGCATGGTCAGCCAGCTTTGCTTTATATAGTCCCATTTACACTTGgcaagtataa ... cctttttcagGCACCTTTTTGTCATTGGGAAAAAAGAGAGGGGAGCTCAAGATTTTATGGA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCTCCTCATCACATATGTGGCTTTGAACTTGATGGATGGGCATGGTCAGCCAGCTTTGCTTTATATAGTCCCATTTACACTTGgcaagtataattaatcagactcatttaaatctaaagtagaaacacctatgatggcatgctggtgtgtaatctttacatttcatacttccctccatctgca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttccctc