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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtgaagacactcaagctttccatctaaagcttctttctattatatttaactgatttaaatggaccatggcatgtgtaagtctttttcttttcctcgtagGCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTCACTGGGTGGGGTAGACGACCGGCAGCACTACGAGCTCTTAGCCAAAGAT

Basic information

species Glycine max
transcript GLYMA07G01940.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G01940.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 9
------ggtgaagacactcaagctttccatctaaagcttctttctattatatttaactgatttaaatggaccatggcatgtgtaagtctttttcttttcctcgtagGCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTCACTGGGTGGGGTAGACGACCGGCAGCACTACGAGCTCTTAGCCAAAGAT
       |  || | |   |  |||||   || ||   |  | || || ||   || || | |    |||   |  | | | | | |  | | | |||  | | ||||  | || || || || || ||  | || || ||||||||||| || |||||||| |||||||||||||| |||||||| ||||| |||||||| ||  
gtaatcagccaaaaga--gatactttcatacttaaaaatgatgcttttgta---aattggtctggtaggagggtctcctattttaatagtct-catttttttgcagGCTTTGCGCCAGCTGAGACAAATAGCTCAGGAGGTTTCTCAGTCTAATGTCACTGGTTGGGGTAGACGACCTGCAGCACTGCGAGCGCTTAGCCAGAGGC
















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|19268757|gb|BM885013.1|BM885013
EST:     GTCCACTGTACGAATCATCAACAGTACTGGCTCAGAAGACAACTATGGCG                         GCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTC
genomic: GTCCACTGTACGAATCATCAACAGTACTGGCTCAGAAGACAACTATGGCGgtatggttat ... ttcctcgtagGCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTC
EST: gi|9985955|gb|BE659961.1|BE659961
EST:     GTCCACTGTACGAATCATCAACAGTACTGGCTCAGAAGACAACTATGGCG                         GNCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTC
genomic: GTCCACTGTACGAATCATCAACAGTACTGGCTCAGAAGACAACTATGGCGgtatggttat ... ttcctcgtagGCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTC
EST: gi|16348853|gb|BI974448.1|BI974448
EST:     GTCCACTGTACGAATCATCAACAGTACTGGCTCAGAAGACAACTATGGCG                         GCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTC
genomic: GTCCACTGTACGAATCATCAACAGTACTGGCTCAGAAGACAACTATGGCGgtatggttat ... ttcctcgtagGCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTC
EST: gi|9985954|gb|BE659960.1|BE659960
EST:     GTCCACTGTACGAATCATCAACAGTACTGGCTCAGAAGACAACTATGGCG                         GCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTC
genomic: GTCCACTGTACGAATCATCAACAGTACTGGCTCAGAAGACAACTATGGCGgtatggttat ... ttcctcgtagGCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaactgatttaaatggaccatggcatgtgtaagtctttttcttttcctcgtagGCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTCACTGGGTGGGGTAGACGACCGGCAGCACTACGAGCTCTTAGCCAAAGAT
   aactgat  putative branch site (score: 3)
                                   tctttttcttttcctc  putative PPT
      tgatttaaat  TA-rich tract