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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgaaggtgtttcagttgtttagttttcttattgttgcaatgcaaattttgatgtttgcaggaatgtcggcttcctacaattgcctatgtaactgatatattttcattccttttattttagAGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTACAGATCCAATAGCTCGTGAAAATTATGAAAAATATGGCCATCCTGATGG

Basic information

species Glycine max
transcript GLYMA15G20400.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G20400.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G167868_T01 (Zea mays), 3'ss of exon 3
gttgaaggtgtttcagttgtttagttttcttattgttgcaatgcaaattttgatgtttgcaggaatgtcggcttcctacaattgcctatgtaactgatatattttcattccttttattttagAGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTACAGATCCAATAGCTCGTGAAAATTATGAAAAATATGGCCATCCTGATGG
                  ||     |||  ||   ||  |||   |||| || |   || || ||        || |||      ||    |||   |||  ||||  |||         |||||| || |||||||| ||||| || ||  |||| || ||||||||  | || ||||| ||| |||| || ||||||||||||||||| || ||||||||
------------------gtacctcttttgtaacattataat---aattctgttcaatgaagaaaaaaatatatcttac------ctggtgaacacttatgatttctctcccgcctacacagAGGCTCATAAGTACTTTGTTGAATATATATCCAAGGCATATCAAGCATTAACTGATCCTATATCTCGAGAGAATTATGAAAAATATGGTCACCCTGATGG

upper sequence: GLYMA15G20400.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv16s0050g01460.t01 (Vitis vinifera), 3'ss of exon 3
gttgaag-----gtgtttcagttgtttagt-tttcttattgttgcaatg------caaattttga----tgtttgcaggaatgtcggcttccta-caattgcctatgtaactgatatattt---tcattccttttatttt--agAGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTACAGATCCAATAGCTCGTGAAAATTATGAAAAATATGGCCATCCTGATGG
||||| |     ||  |||||||  |  || || |||| | || |  ||      ||| |  ||     | |||  |   || |  | || ||| ||||| | | |   | | || |||||   |  ||  |||| ||||  |||||| ||||| || || || |||| |||  | || |||||||| ||||| |||||||||||  | ||||| ||||||||||| |||||||||||||||||
gttgaggttctagttcttcagttaatatgtgttccttagttttactttgatttagcaagtactgcgtcttcttttgaatcatctgtgtttactatcaatttctttttgcatttatttatttatctttttttttttgttttccagAGGCCCACAAATATTTTGTGGAGTTCATATCTAAGGCTTATCAGGCTCTCACAGATCCAATCTCACGTGAGAATTATGAAAAGTATGGCCATCCTGATGG
















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|193549814|gb|FK507509.1|FK507509
EST:     GTATAGGAGACTTTCTATTCAATACCATCCAGATAAAAATCCGGATCCAG                         AGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTA
genomic: GTATAGGAGACTTTCTATTCAATACCATCCAGATAAAAATCCGGATCCAGgttgaaggtg ... tttattttagAGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTA
EST: gi|192306292|gb|FG996878.1|FG996878
EST:     GTATAGGAGACTTTCTATTCAATACCATCCAGATAAAAATCCGGATCCAG                         AGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTA
genomic: GTATAGGAGACTTTCTATTCAATACCATCCAGATAAAAATCCGGATCCAGgttgaaggtg ... tttattttagAGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTA
EST: gi|193628757|gb|FK577257.1|FK577257
EST:     GTATAGGAGACTTTCTATTCAATACCATCCAGATAAAAATCCGGATCCAG                         AGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTA
genomic: GTATAGGAGACTTTCTATTCAATACCATCCAGATAAAAATCCGGATCCAGgttgaaggtg ... tttattttagAGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTA
EST: gi|193322161|gb|FK284939.1|FK284939
EST:     TATAGGAGACTTTCTATTCAATACCATCCAGATAAAAAATCCGGATCCAG                         AGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTA
genomic: TATAGGAGACTTTCTATTCAATACCATCCAGATAAAAA-TCCGGATCCAGgttgaaggtg ... tttattttagAGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTA
EST: gi|11274682|gb|BF325019.1|BF325019
EST:     GTATAGGAGACTTTCTATTCAATACCATCCAGATAAAAATCCGGATCCAGGTTGAAG                   
genomic: GTATAGGAGACTTTCTATTCAATACCATCCAGATAAAAATCCGGATCC-------AGgttgaaggtg ... ttta
EST: gi|6724522|gb|AW308921.1|AW308921
EST:     GTATAGGAGACTTTCTATTCAATACCATCCAGATAAAAATCCGGATCCAG                         AGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTA
genomic: GTATAGGAGACTTTCTATTCAATACCATCCAGATAAAAATCCGGATCCAGgttgaaggtg ... tttattttagAGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcggcttcctacaattgcctatgtaactgatatattttcattccttttattttagAGGCACACAAGTACTTCGTTGAGTACATTGCCAAAGCTTATCAAGCTCTTACAGATCCAATAGCTCGTGAAAATTATGAAAAATATGGCCATCCTGATGG
                        aactgat  putative branch site (score: 3)
                                tattttcattcctttt  CT-rich tract
                           tgatatattttcattc  TA-rich tract