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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaacttcatgccattttgctccttaatctatgggcttctcctagtagtcctcctaattagttaaatttaactgcagAACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTTGGCTCTGTCTTGAGTTATATTACTCTGAGATTGCTAGGTGAGGGGCCTA

Basic information

species Glycine max
transcript GLYMA01G00430.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G00430.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G065494_T01 (Zea mays), 3'ss of exon 3
gtaagaacttcatgccattttgctccttaatctatgggcttctcctagtagtcctcctaattagttaaatttaactgcagAACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTTGGCTCTGTCTTGAGTTATATTACTCTGAGATTGCTAGGTGAGGGGCCTA
| ||| | |   | | |  ||  ||   |  |||  |     | |||   ||  ||  | || ||    |  ||||| ||||  | |||||||| ||||| ||||| ||||| ||||||||||||||||||||||| |   |||  ||  ||||| |||||||||| || ||||| ||  
gcaaggattcagttctaaatttgtca--accctacag-----tgctaacggtgatctaattttgtcgc-tgcaactgtagAATGAAGATGGTGGCTGGGGCTTGCACATTGAGGGTCCAAGCACCATGTTTGGCTCAGCACTGACCTACGTTACTTTGAGATTGCTTGGAGAGGGACCAG

upper sequence: GLYMA01G00430.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G023798_T02 (Zea mays), 3'ss of exon 1
gtaagaacttcatgccattttgctccttaatctatgggcttctcctagtagtcctcctaattagttaaatttaactgcagAACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTTGGCTCTGTCTTGAGTTATATTACTCTGAGATTGCTAGGTGAGGGGCCTA
| ||| |     | | |  ||  ||     |  |  ||||       | ||     || |||   | | |  ||||| ||||  | ||||| || ||||| ||||| ||||| ||||||||||||||||| ||||| |   |||  ||| ||| | |||||||||| || ||||| ||  
gcaaggatcaagttctaaatttgtcaaccctacaatggct-------gaaggtgatctgattttatcactgcaactgtagAATGAAGATGGCGGCTGGGGCTTGCACATTGAGGGTCCAAGCACCATGTTCGGCTCAGCACTGACCTATGTTATTTTGAGATTGCTTGGAGAGGGACCAG

upper sequence: GLYMA01G00430.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G07050.1 (Arabidopsis thaliana), 3'ss of exon 3
------------------------------------------------------------------------gtaagaactt-catgccattttgctccttaatctatgggcttctcct-------------agtagtcctcctaattagttaaatttaactgcagAACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTTGGCTCTGTCTTGAGTTATATTACTCTGAGATTGCTAGGTGAGGGGCCTA
                                                                         ||     || ||   | || || | |  |   | | | ||||| ||             | || |   |   ||| ||   || |   | |||||  |||| || || |||||||| |||||||| || || |||||||||||||| ||||| ||||  ||| ||||||| || ||||| || || || ||||
gcaagaaatttctcgtatctttactataattctgtttccttgcaatgctgtacttggattttccatcgcaaaatagatgtttacacatctttctgtttcaaagattttcgtcttctactttctaattgttaaactaatttgcactattggtggcatgtggtttcagAATGAGGACGGAGGTTGGGGTTTACATATTGAGGGCCCTAGCACCATGTTTGGGTCTGTGTTGAACTATGTTACTCTAAGGTTGCTTGGAGAAGGACCTA

upper sequence: GLYMA01G00430.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 4
---------------------------------------------------------gtaagaacttcatgccattttgctccttaatctatgggcttctc----------ctagtagtcctcctaattagttaaatt--taactgcagAACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTTGGCTCTGTCTTGAGTTATATTACTCTGAGATTGCTAGGTGAGGGGCCTA
                                                          |||  ||||  |     ||      ||  | |||| | ||||           |||| |  | |  |||| |   | ||   ||| |||||||||| ||||||||||||||||| ||||| || || |||||||||||||||||  |||||||||  ||| | ||| | || ||||| ||||| ||  |||
gtaatctacaactatgagaaatcaatctataatcctcttttgccatgtgctttttttttaattacttattatttgttaaaaattttctttatgtgattcttgcctctggggctagcaaacattttaatcataaagatgcataattgcagAACAAAGATGGTGGGTGGGGTTTACATATCGAGGGCCCAAGCACCATGTTTGGTACTGTCTTGAACTATGTAACTTTAAGGTTGCTTGGTGAAGGAGCTA

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|120495719|gb|EH223886.1|EH223886
EST:     TAACTGAAGAACATAGAAAGGAAATATGCCGTTACCTCTATAATCATCAA                         AACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTT
genomic: TAACTGAAGAACATAGAAAGGAAATATGCCGTTACCTCTATAATCATCAAgtaagaactt ... ttaactgcagAACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTT
EST: gi|213610490|gb|DB958795.1|DB958795
EST:     TAACTGAAGAACATAGAAAGGAAATATGCCGTTACCTCTATAATCATCAA                         AACA-GGNATGGTNGGGTGGGGTTTGCATATTGAAGGTCCAAGC
genomic: TAACTGAAGAACATAGAAAGGAAATATGCCGTTACCTCTATAATCATCAAgtaagaactt ... ttaactgcagAACAAGG-ATGGT-GGGTGGGGTTTGCATATTGAAGGTCCAAGC
EST: gi|213587324|gb|DB965944.1|DB965944
EST:     TAACTGAAGAACATAGAAAGGAAATATGCCGTTACCTCTATATTCATCAA                         AACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTT
genomic: TAACTGAAGAACATAGAAAGGAAATATGCCGTTACCTCTATAATCATCAAgtaagaactt ... ttaactgcagAACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTT
EST: gi|208029611|gb|GD831989.1|GD831989
EST:     TAACTGAAGAACATAGAAAGGAAATATGCCGTTACCTCTATAATCATCAA                         AACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTT
genomic: TAACTGAAGAACATAGAAAGGAAATATGCCGTTACCTCTATAATCATCAAgtaagaactt ... ttaactgcagAACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTT
EST: gi|193442654|gb|FK408283.1|FK408283
EST:     TAACTGAAGAACATAGAAAGGAAATATGCCGTTACCTCTGTAATCATCAA                         AACAAGGATGGTGGGTGGGGTTTG
genomic: TAACTGAAGAACATAGAAAGGAAATATGCCGTTACCTCTATAATCATCAAgtaagaactt ... ttaactgcagAACAAGGATGGTGGGTGGGGTTTG
EST: gi|9564318|gb|BE473827.1|BE473827
EST:     TAACTGAAGATCATAGAAAGGAAATATGCCGTTACCTCTATAATCATCAA                         AACAAGGATGGTGGGTGGGTTTTG-ATATTGAACGTCCACGCACCATGTTT
genomic: TAACTGAAGAACATAGAAAGGAAATATGCCGTTACCTCTATAATCATCAAgtaagaactt ... ttaactgcagAACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttaatctatgggcttctcctagtagtcctcctaattagttaaatttaactgcagAACAAGGATGGTGGGTGGGGTTTGCATATTGAAGGTCCAAGCACCATGTTTGGCTCTGTCTTGAGTTATATTACTCTGAGATTGCTAGGTGAGGGGCCTA
                                taattagttaaattta  TA-rich tract