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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatattttatatgatgtgctgcatcttgctcttgagcacaatttttattgtttattgtcagtacttttttggttttactgattcctactttttctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCATTCCGTGTTCCCACTGTGGATGTCTCTGTTGTTGACCTCACAGTGAGGC

Basic information

species Glycine max
transcript GLYMA04G36870.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G36870.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g40950.1 (Oryza sativa), 3'ss of exon 8
gtgaatattttatatgatgtgctgcatcttg-ctcttgagcacaatttttattgtttattgtcagtacttttttggttttactgattcctact-ttttctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCATTCCGTGTTCCCACTGTGGATGTCTCTGTTGTTGACCTCACAGTGAGGC
      ||| | || ||  |  ||  | | | || ||   |    |  | ||  | | | |     |  ||| |   | |  | | |  | || |      ||  ||||||| || || || || |||||| | |||||||| |||||||||||||| ||||||||||| || |||||||||||||| |||||  | || || ||||
------attatttaaga-attttgtttatagtcttttcgcctttgtgctaatcctgtttcggggaaatgtttgtacatgttttaacttttgctataaaacttgttagGCTGTCGGCAAGGTGCTTCCTGCTCTCAATGGAAAGTTGACTGGTATGGCTTTCCGTGTTCCAACCGTGGATGTCTCTGTCGTTGATTTGACTGTCAGGC

upper sequence: GLYMA04G36870.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os08g03290.3 (Oryza sativa), 3'ss of exon 7
gtgaatattttatatgatgtgctgcatcttgctcttgagcacaatttttattgtttattgtcagtacttttttggttttactgattcctactttttctgtgca--agGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCATTCCGTGTTCCCACTGTGGATGTCTCTGTTGTTGACCTCACAGTGAGGC
        |  || ||  | | |   | ||| |  |||   ||  |||| ||  | |     | |     |   |  ||| ||| | |||   |   ||      |||||||||| || || || |||| ||||||||| ||  | || || ||| | ||||||||||||||||| |||||||| |||||||| |||||||| ||  
-aagggggtgcatgtgg-gcggtagtttttggttgtgaaagcatgttttgttagtaa-----aatgggactgcagccttaatgacttctaacatcaatgcattgcagGCTGTTGGCAAGGTTCTTCCTGATTTGAATGGCAAGCTTACGGGAATGTCCTTCCGTGTTCCCACTGTCGATGTCTCAGTTGTTGATCTCACAGTTAGAA

upper sequence: GLYMA04G36870.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g38920.1 (Oryza sativa), 3'ss of exon 8
------gtgaatattttatatgatgtgctgcatcttgc-tcttgagcacaatttttattgtttattgtcagtacttttttggttttactgattcctactttttctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCATTCCGTGTTCCCACTGTGGATGTCTCTGTTGTTGACCTCACAGTGAGGC
       ||  | || |  |   |   ||| | |||   | | | |||| |||     ||||||| ||  |||||   || |||||||| |     | || |  |     ||||||| || || || || |||||  | ||||||||  ||||||| ||||| |||||||||||||| || ||||| || |||||||| || || || ||||
tttttgttgtgttttgttaaaactacactgaaccttctgtatcgggcaccattaaacctgtttatcgt--gtactcaattagttttactca-----atttctcat-----agGCTGTCGGCAAGGTGCTTCCTGCCCTCAATGGAAAGCTGACTGGAATGGCTTTCCGTGTTCCCACAGTCGATGTTTCCGTTGTTGATCTGACTGTTAGGC

upper sequence: GLYMA04G36870.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G046804_T02 (Zea mays), 3'ss of exon 8
gtgaatattttatatgatgtgctgcatcttgctcttgagcacaatttttattgtttattgtcagtacttttttggttttactgattcctactttttctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCATTCCGTGTTCCCACTGTGGATGTCTCTGTTGTTGACCTCACAGTGAGGC
     || | ||  ||      || |      |    ||| || | | |  || | | | |   |    |  ||| |||    |||  |   ||| |  |||| ||||||||| ||||| || |||| | ||||||| ||  | ||||||||| | ||||||||||| |||||||||||||| |||||||||||||| || ||  
--acttactgtagttgtaaatttgtaatagagttggtagc-cattctgttctgatgaatctagttggaatgctggatttcaatattgatgagtttgc-atgca-gGCTGTTGGTAAAGTTCTTCCTGATCTGAATGGCAAGCTCACTGGTATGTCCTTCCGTGTTCCTACTGTGGATGTCTCGGTTGTTGACCTCACCGTCAGAA

upper sequence: GLYMA04G36870.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G071630_T02 (Zea mays), 3'ss of exon 7
----------gtgaatattttatatgatgtgctgc----atcttgctcttgagc---acaatttttattgtttattgtcagtact--tttttggttttactgattcc---------tactttttctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCATTCCGTGTTCCCACTGTGGATGTCTCTGTTGTTGACCTCACAGTGAGGC
          |  |   | | | ||  |||   ||    |   | || |  ||    |||| |    |   || ||||    ||   |||||  || || |  ||           |||||  | |     |||||||||| ||||| || ||||   | ||||||||||||||||| ||| | |||||||| || ||||| ||||| ||||||||||| || || || ||||
gttagaaactgaaacagtgtgaaatagtgtatagccacaactcttctgtgaagtgaaacaagtcacctccatttttgttcaaaccactttttatttgtattagtttgtaacagctatacttgatttcctgcagGCTGTTGGCAAAGTGCTTCCTGTCCTCAATGGAAAATTGACTGGAATGTCTTTCCGTGTCCCAACTGTCGATGTTTCTGTTGTTGATCTGACTGTTAGGC

upper sequence: GLYMA04G36870.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G180625_T02 (Zea mays), 3'ss of exon 8
gtgaatattttatatgatgtgctgcatcttgctcttgagcacaattttta--ttgtttattgtcagtacttttttggttt----tactgattcctactttttctgtgca--agGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCATTCCGTGTTCCCACTGTGGATGTCTCTGTTGTTGACCTCACAGTGAGGC
              ||   |||||| |  ||   |||     ||||  ||  | ||  ||| | |  ||   | | |||     | || | | | | | ||  |||     ||||||| || || || || ||||  |||||||| ||  | ||||| ||| | ||||| |||||||| |||||||| || |||||||||||||| || ||  
-------------ttgtgctgctgcttactgtagttgtaacaaattggtacctcgtccattctgatgacgaatatagttaagagtgcttacttccaatattgatgtattgcagGCTGTCGGTAAGGTTCTTCCTGAATTGAATGGCAAGCTCACTGGCATGTCCTTCCGGGTTCCCACCGTGGATGTGTCAGTTGTTGACCTCACTGTCAGAA

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|24135894|gb|BU926404.1|BU926404
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|16281792|gb|BI944672.1|BI944672
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|16284488|gb|BI946116.1|BI946116
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|17401398|gb|BM178180.1|BM178180
EST:     GCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|33387440|gb|CA850647.1|CA850647
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|193454911|gb|FK421240.1|FK421240
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCC
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCC
EST: gi|16280046|gb|BI943754.1|BI943754
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|254329019|gb|GR833391.1|GR833391
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|254319963|gb|GR829259.1|GR829259
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|208093066|gb|GD889795.1|GD889795
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCGGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|16281224|gb|BI944377.1|BI944377
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|16279430|gb|BI943432.1|BI943432
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|42722894|gb|CK768793.1|CK768793
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|120534237|gb|EH262370.1|EH262370
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGC-AAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|16279578|gb|BI943508.1|BI943508
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAGAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|17519507|gb|BM188549.1|BM188549
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|26047146|gb|CA784026.1|CA784026
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|120534108|gb|EH262241.1|EH262241
EST:     AAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCNCA-G                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAA
genomic: AAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGC-CAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAA
EST: gi|16282130|gb|BI944853.1|BI944853
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|207815439|gb|GD789080.1|GD789080
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGT
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGT
EST: gi|16276983|gb|BI942143.1|BI942143
EST:     NAAGAGCTGCTTCATTNNACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTT-GAAAAGTCCTCCCTGCTTTGAATGNANNATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|254329018|gb|GR833390.1|GR833390
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|31308669|gb|CD393872.1|CD393872
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|16277862|gb|BI942602.1|BI942602
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|18038785|gb|BM307079.1|BM307079
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|26047478|gb|CA784257.1|CA784257
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA
EST: gi|16277942|gb|BI942644.1|BI942644
EST:     GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAG                         GCTGTTGGAAAAGTCCTCCCTGCTNTGAATGGAAAATTGACTGGTATGGCA
genomic: GAAGAGCTGCTTCATTTAACATCATTCCTAGCAGCACTGGAGCTGCCAAGgtgaatattt ... tctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttattgtcagtacttttttggttttactgattcctactttttctgtgcaagGCTGTTGGAAAAGTCCTCCCTGCTTTGAATGGAAAATTGACTGGTATGGCATTCCGTGTTCCCACTGTGGATGTCTCTGTTGTTGACCTCACAGTGAGGC
                            tactgat  putative branch site (score: 2)
                                  ttcctactttttctgt  CT-rich tract
              tactttttt  TA-rich tract