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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGACGTTATGTTTGATACAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaagtgttaaccacttctaatttgttgatgtctacttaccattggaaagccaagccagtaatgaacacacctttggtcttgtggggttaatatt...

Basic information

species Glycine max
transcript GLYMA13G18950.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G18950.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv07s0005g04440.t01 (Vitis vinifera), 5'ss of exon 10
GCAGACGTTATGTTTGATACAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaagtgttaaccacttctaatttgttgatgtctacttaccattggaa----agccaagccagtaatgaacacacctttggtcttgtggggttaatatt
||||  || |||| ||| || || || ||||||||||| |||||||| ||||||||||| |||||||||||     || | |    |  || |  ||| ||    |   |||  | || |       | |  |   || ||    |   | |||| |     ||||| || | 
GCAGCAGTAATGTATGACACGATCCGTGAATGGCCTCGTTATGTGAAAGTGCCTTTCCCAATTGCAAAGgtaaaacaaatatgctgctgttgtccttttttccccttcccttttcttttgggtgttggtcgggttggtgattgg-aggtcattggac--aatgggtttatct-
















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|209703803|gb|BW670712.1|BW670712
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|58018297|gb|CX705039.1|CX705039
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGATAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|213595511|gb|DB977919.1|DB977919
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|308222711|gb|HO760621.1|HO760621
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|209718616|gb|BW662708.1|BW662708
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|58015889|gb|CX702631.1|CX702631
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|10232656|gb|BE801544.1|BE801544
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|254347888|gb|GR854137.1|GR854137
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|58016827|gb|CX703569.1|CX703569
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCCCTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|58015071|gb|CX701813.1|CX701813
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|192298922|gb|FG987667.1|FG987667
EST:     GCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: GCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|209714365|gb|BW677065.1|BW677065
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|193536460|gb|FK489210.1|FK489210
EST:     CAATTCGAGGATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|192301727|gb|FG997641.1|FG997641
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|192316340|gb|FK011685.1|FK011685
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAT                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|192327146|gb|FK015538.1|FK015538
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATCGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|208207915|gb|GE002908.1|GE002908
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|209709596|gb|BW661923.1|BW661923
EST:     GATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: GATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|192316341|gb|FK011686.1|FK011686
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAT                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|254323287|gb|GR840092.1|GR840092
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
EST: gi|8669762|gb|BE190869.1|BE190869
EST:     CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAG                         GCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA
genomic: CAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaag ... ttgatttcagGCATTGGCAACACCAAGAGAAATATTACTAAACAAGGTCCCCTTTCCACTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCAGACGTTATGTTTGATACAATTCGAGAATGGCCTCGATATGTGAAGGTGCCTTTCCCCATTGCAAAGgtgtgttaagtgttaaccacttctaatttgttgatgtctacttaccattggaaagccaagccagtaatgaacacacctttggtcttgtggggttaatatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG