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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatattacacttttagcctggagataatttcagataagatttgaggtttgggtactttagtttttttattattttgcagGATGATTTTAGCAGTGCTGACTCTTCAATCAACGGCCCAAAGGCATTTTTCGCTAACATGCCATTGTCTAAGACTCTCACCATGAATCTTGATGTTCCCG

Basic information

species Glycine max
transcript GLYMA08G20020.1
intron # 25
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20020.1 (Glycine max), 3'ss of exon 25
lower sequence: AT1G71220.2 (Arabidopsis thaliana), 3'ss of exon 25
--------gtatatattacacttttagcctgga-gataatttcagataagatttgaggtttgggta--ctttagtttt----tttattattttgcagGATGATTTTAGCAGTGCTGACTCTTCAATCAACGGCCCAAAGGCATTTTTCGCTAACATGCCATTGTCTAAGACTCTCACCATGAATCTTGATGTTCCCG
         | || |  |   |  ||   |  | ||   | |   ||      |    | ||   |    ||  || |    | |||  ||||  |||| ||||  |||||| | | || |    |  | || || |||||||||||||| || ||||||||||||||||| || |||||||||||||| ||||| |
gtatgttattttaaaagatcttaataaaatatatgacggtctggtattgtccatatcctctgatcaaatattgattctgccatgtatctttttttagGACGATTACAGCAGTACAGGCTTTGACGTAGATGGGCCTAAGGCATTTTTCGCAAATATGCCATTGTCTAAGACACTTACCATGAATCTTGACGTTCCAG

upper sequence: GLYMA08G20020.1 (Glycine max), 3'ss of exon 25
lower sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 26
gtat--atattacacttt-tagcctggagat--aatttcagataagatttgaggtttgggtactttagtttttttattattttgcagGATGATTTTAGCAGTGCTGACTCTTCAATCAACGGCCCAAAGGCATTTTTCGCTAACATGCCATTGTCTAAGACTCTCACCATGAATCTTGATGTTCCCG
||||    | |  | ||| | |  | ||||   |||||||| |   || ||        ||   |||||| |  |||  ||||||||||||| || |||||| | || | | ||||||| ||||| || |||||||| || || |||||||| || || || ||||| |||||||| ||||| || |
gtatcagcagtgtattttgttgtttagagaccaaatttcagcttgcatgtg--------gtgtcttagttatgctatggttttgcagGATGACTTCAGCAGTACAGATTATACAATCAATGGCCCTAAAGCATTTTTTGCCAATATGCCATTATCCAAAACCCTCACTATGAATCTCGATGTGCCTG
















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|7692843|gb|AW760942.1|AW760942
EST:     TTGCTGATCTTCCTCTGAAGAACTACTACAGATATGTAGTACCATCAATG                         GATGATTTTAGCAGTGCTGACTCTTCAATCAACGGCCCAAAGGCATTTTTC
genomic: TTGCTGATCTTCCTCTGAAGAACTACTACAGATATGTAGTACCATCAATGgtatatatta ... tattttgcagGATGATTTTAGCAGTGCTGACTCTTCAATCAACGGCCCAAAGGCATTTTTC
EST: gi|193586125|gb|FK543387.1|FK543387
EST:     TACAGATATGTAGTACCATCAATG                         GATGATTTTAGCAGTGCTGACTCTTCAATCAACGGCCCAAAGGCTATTTTT
genomic: TACAGATATGTAGTACCATCAATGgtatatatta ... tattttgcagGATGATTTTAGCAGTGCTGACTCTTCAATCAACGGCCCAAAGGC-A-TTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatttcagataagatttgaggtttgggtactttagtttttttattattttgcagGATGATTTTAGCAGTGCTGACTCTTCAATCAACGGCCCAAAGGCATTTTTCGCTAACATGCCATTGTCTAAGACTCTCACCATGAATCTTGATGTTCCCG
                                    tttttttattatttt  CT-rich tract
                            tactttagttttttta  TA-rich tract