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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcctgtatgtttttattatttccattttacctttctcagtgaggattcagtaatttcattacccattaaattgacagcttaatttttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA

Basic information

species Glycine max
transcript GLYMA02G01750.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01750.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g23740.2 (Oryza sativa), 3'ss of exon 2
--------------------------------------------------------------------------------------------------tgcctgtatgtttttattatttccattttacctttctcagtgaggattcagt-aatttcattacccattaaattgacagcttaatttttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
                                                                                                   |    |   | || || |  |   | || || | |||| |  |  ||   |  ||   ||||   |||       || ||  |||| |    |    |||||||| || ||||||||||||||| |||||||||| |||||||| |||||||||||||||||||| ||||| || |||||||| || || ||||||||
gtatgttctcaagttcaatacctgctaattatttgggcattgcttgaaaatattttctcatctccatcctgctactcagaggtggtcagaaaatggttagaacatgcatattcatgaaat--gtgttgccatcctcattttgatttggtttgataaaattaaggattctcacttcaactctatttctcgctt----tagGTTGATTGCGATGAGCACAAGAGTGTGTGCAGCAAGTATGGAGTTTCTGGGTACCCAACAATTCAATGGTTCCCCAAAGGATCCCTGGAGCCCAAAAA

upper sequence: GLYMA02G01750.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g06430.1 (Oryza sativa), 3'ss of exon 2
-----tgcctgtatgtttttattatttccattttacctttctcagtgaggattcagtaatttcat-tacccattaaattgacagcttaatttttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
            |||   ||  | |||  | |  |  | | | | | |||||  | |||||| || |     || |        ||  |||||   |   ||  |||||||||||||||||||||||||| |||||||||| |||||||| ||||||||||| ||||| || ||||| || ||||| ||  | || ||||| ||
aagaaaataaaaatggcattcctgttt--agtggatatatgttatt-aggatctaataattttatgtgtttgttgatgaattgactccattttgtct---atccagGTTGACTGTGATGAGCACAAGAGTGTGTGCAGCAAGTATGGAGTTTCTGGGTACCCCACAATCCAATGGTTCCCCAAAGGTTCCTTGGAGCCCAAGAA

upper sequence: GLYMA02G01750.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G159369_T01 (Zea mays), 3'ss of exon 2
----------------------------------tgcctgtat-------gtttttattatttccattttacctttctcag------------------tgaggattcagtaa--tttcattacc-cattaaattgacagcttaatttttaatgta----atgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
                                  ||   ||||       ||||| || |||| |||   ||  || ||                    |||  ||  | | |  |||| || |  || | |||| || | ||   ||||  | |     |  ||||||||||||||||||||||||||| | |||||||| |||||||| ||||||||||| |||||||| |||||||| ||||| || || || || || ||
gtacatctcaccttgtttagtctccccaggggaatgttggtattgcaacagttttcatcatttacatcccacaattttctatggtatcgaaacttgttctgaatatctaattacatttctttgctgcaatgaattaactgttttcctttttgtatctactacctagGTTGACTGTGATGAGCACAAGAGTGTATGCAGCAAGTATGGAGTTTCTGGGTACCCCACAATTCAATGGTTTCCCAAAGGTTCCCTGGAGCCAAAGAA

upper sequence: GLYMA02G01750.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G128171_T04 (Zea mays), 3'ss of exon 2
-----------tgcctgtatgtttttattatttccattttacctttctcagtgaggattcagtaatttcattacccattaaattgacagcttaatttttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
           |      |  |   ||| |  |   || | |  || |   || || ||||  ||    || |  || | |  | | |   |  ||| |  | |    |||||||| ||||||||||||||||||||||||||||| |||||||| || ||||| |||||||| || ||||| || ||||||||  | || ||||||||
gataagaaaattattgacacatggctatgacatttcttctgcactttt---tgcggtttcataaa----atcattcacttatcttaaaatctggtttctttttt----tagGTTGATTGTGATGAGCACAAGAGTTTGTGCAGCAAGTATGGAGTTTCCGGGTATCCAACAATCCAATGGTTCCCGAAAGGATCCTTGGAGCCCAAAAA

upper sequence: GLYMA02G01750.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G47470.3 (Arabidopsis thaliana), 3'ss of exon 2
tgcctgtatgtttttattatttccattttacctttctcagtgaggattcagtaatttcattacccattaaat-tgacagcttaatttttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
         |||  | | ||| | ||||     |||      |   || |  |  |  || |   ||  | | |  || |||    | || |||  || ||||||| ||||||||||| |||||| | || |  |||||||| ||   ||| |||||||| |||||||||||||| |||||||||||||||||  ||||
---------gttagtgtgatt-ctatttcggtattcagctccaatgtttaaaagatagatgaatgatagattgtttcaacttg---tgtattgtggtgaagGTTGATTGTGATGAGCAAAAGAGTGTCTGTACTAAATATGGTGTTAGTGGATACCCAACCATTCAGTGGTTTCCTAAAGGATCTCTTGAACCTCAAAA

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|193602208|gb|FK558877.1|FK558877
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|193350926|gb|FK314206.1|FK314206
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCCGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|208324590|gb|GE120963.1|GE120963
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|193641401|gb|FK589007.1|FK589007
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATTGGCAAG                         GTTGACTGTGATGAGCATAAGAGTTTGTGCAGCAAGTATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|193494709|gb|FK458903.1|FK458903
EST:     AAGCTTGGTAGCAGCTTCAAGAAAGCCTAAATTCCGTTTTAATCGGCAAG                         GTTGACTGTGAT
genomic: AAGCTTGGTAGCAGCTTCAAGAAAGCC-AAAT-CTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGAT
EST: gi|192333634|gb|FK026879.1|FK026879
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|193481517|gb|FK446440.1|FK446440
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATTGGCAAG                         GTTGACTGTGATGAGCATAAGAGTTTGTGCAGCAAGTATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|208127487|gb|GD923931.1|GD923931
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|193382421|gb|FK349006.1|FK349006
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAAGCACAAGAGTT
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGA-GCACAAGAGTT
EST: gi|193475513|gb|FK440292.1|FK440292
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACA
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACA
EST: gi|208297750|gb|GE092853.1|GE092853
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|208061547|gb|GD859261.1|GD859261
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATTGGCAAG                         GTTGACTGTGATGAGCATAAGAGTTTGTGCAGCAAGTATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|208287580|gb|GE081716.1|GE081716
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATTGGCAAG                         GTTGACTGTGATGAGCATAAGAGTTTGTGCAGCAAGTATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|163921267|gb|EH038909.1|EH038909
EST:     AAAAGCTAGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|193627766|gb|FK577948.1|FK577948
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|207758702|gb|GD728748.1|GD728748
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|193521591|gb|FK477712.1|FK477712
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|208180185|gb|GD973684.1|GD973684
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|207759728|gb|GD734843.1|GD734843
EST:     AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAAAGCTTGGTAGCAGCTTCAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
EST: gi|193465544|gb|FK432477.1|FK432477
EST:     AAGCTTGGTAGCAGACTTACAAGAAAGCCAAATCTGTTTTAATCGGCAAG                         GTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG
genomic: AAGCTTGGTAGCAG-CTT-CAAGAAAGCCAAATCTGTTTTAATCGGCAAGgtcagcacct ... tgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcagtaatttcattacccattaaattgacagcttaatttttaatgtaatgtagGTTGACTGTGATGAGCACAAGAGTTTGTGCAGCAAATATGGAGTCTCTGGGTACCCAACAATTCAGTGGTTTCCAAAAGGATCTCTTGAACCCAAAAA
                                       ttttaat  putative branch site (score: 3)
                                  ttaatttttaatgtaa  TA-rich tract