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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAACGCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaattttgatggcttgccatgttcagttttctcccatatttctcttagcgtcttcaaaattaactaacaaaattgtcatgtgttgttgtccttttcatag

Basic information

species Glycine max
transcript GLYMA08G18560.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G18560.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv14s0006g02010.t01 (Vitis vinifera), 5'ss of exon 6
CCAACGCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAG---GAGAAGgtatgtttaattttgatggcttgccatgttcagttttctcccatatttctcttagcgtcttcaaaattaactaacaaaattgtcatgtgttgttgtccttttcatag--
|| || || ||||||||| | ||||||||||||||||||||||| ||||   | |||||||||  ||||  |  |  | |  |   || | |  |  | | | |  |   |||    |  ||| ||||| |      || |||  | |  ||    |  |  | |  
CCCACACAACAGCAAACAAGATACCGGAAATCTCCTTATGCTCCATCAGATGGTGAAGgtatgcctaatgat--taacatagc---tttactcatacctcttgtcccagataggaaataaaaagttaacaag---gtttctcaaat-tcatttagttacttgttgcc
















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|6069887|gb|AW099483.1|AW099483
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAAGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|6069892|gb|AW099486.1|AW099486
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|6914456|gb|AW395986.1|AW395986
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTGCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|27426337|gb|CA937857.1|CA937857
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|6072271|gb|AW101658.1|AW101658
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|193640657|gb|FK587638.1|FK587638
EST:     ATGCTCCTTCAGGAGAAG                         AA-GGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: ATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|58014741|gb|CX701483.1|CX701483
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|8827757|gb|BE211487.1|BE211487
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|254324562|gb|GR833987.1|GR833987
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|192313317|gb|FK005089.1|FK005089
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCGGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|6914757|gb|AW396287.1|AW396287
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AATGGGGAAGTGTACCAGCCGAGGATGCACCTTCCAACCAG
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAG
EST: gi|4303380|gb|AI443468.1|AI443468
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|31472363|gb|CD414391.1|CD414391
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCTGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|193451500|gb|FK420608.1|FK420608
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|7639980|gb|AW734290.1|AW734290
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|10233243|gb|BE802131.1|BE802131
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|207729552|gb|GD707336.1|GD707336
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|254324561|gb|GR833986.1|GR833986
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|31309242|gb|CD394445.1|CD394445
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCTGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|193491775|gb|FK454325.1|FK454325
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AA-GGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|19348889|gb|BM893421.1|BM893421
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|192313316|gb|FK005088.1|FK005088
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCGGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|31305685|gb|CD390888.1|CD390888
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTCTTCCAGCTGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|10233289|gb|BE802177.1|BE802177
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGAAGTGTTCCAGCCGAGGATGCACCTTCCAACCAGTAAGCAGCAA
EST: gi|6914693|gb|AW396223.1|AW396223
EST:     GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAG                         AANNNNNNNAG-GTTCCAGCCGAGGATGCACCTTCCAACCAGT
genomic: GCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaa ... cttttcatagAAGGGGGA-AGTGTTCCAGCCGAGGATGCACCTTCCAACCAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCAACGCAGCAGCAAACACGTTACCGGAAATCTCCTTATGCTCCTTCAGGAGAAGgtatgtttaattttgatggcttgccatgttcagttttctcccatatttctcttagcgtcttcaaaattaactaacaaaattgtcatgtgttgttgtccttttcatag

- - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - GGAGAA