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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatatgacaatattccaaacatgttctgaactgaatgtctacaagttcatcttgaaatgttggattttttgttgtctattgatagtgagtaaaatctacaacaaataagactactgatagctacttctctatatattttttcatcctatttcagAAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGTTTTGATGGTGTTGTTCCTGCCAAGTATTTTGAAAAGATAGAATCATGGCC

Basic information

species Glycine max
transcript GLYMA17G37310.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G37310.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os06g04300.1 (Oryza sativa), 3'ss of exon 6
gtatgatatgacaatattccaaacatgttctgaactgaatgtctacaagttcatcttgaaatgttggattttttgttgtctattgatagtgagtaaaatctacaacaaataagactactgatagctacttctctatatattttttcatcctatttcagAAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGTTTTGATGGTGTTGTTCCTGCCAAGTATTTTGAAAAGATAGAATCATGGCC
                                                             | |     | |||||| | ||   | |   | |  | |      |  || |   | ||    |||  ||    |||  |   |   |    | ||||| || |||||||| |||||||| ||||||||||||||  |||| || ||||| ||||| ||||||||||  ||||| || || || || ||| |||||||
------------------------------------------------------------gtatgatgctgtttgtt-tatagccacaagcaatctatttattctcttatcaacttgctaggggctggtttctgatagctgaatctgtt---tctcagATGGAATGAAGCTGTACATTTCAGACAACAAGGTGATTCTGACAGAGGGTTTCGATGGCGTTGTTCCTGTGAAGTACTTCGAGAAAATTGAAACATGGCC

upper sequence: GLYMA17G37310.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G061783_T04 (Zea mays), 3'ss of exon 4
gtatgatatgacaatattccaaacatgttctgaactgaatgtctacaagttcatcttgaaatgttggattttttgttgtctattgatagtgagtaaaatctacaacaaataagactactgatagctacttctctatatattttttcatcctatttc--agAAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGTTTTGATGGTGTTGTTCCTGCCAAGTATTTTGAAAAGATAGAATCATGGCC
                                                                 | | | | |  ||  ||   ||||      |||   | |     |  |  | ||||  ||||       |||||     | |   | || |  ||  || ||||||||||| ||||| |||||||| ||||||||||| |||||||||||||| || || || |  || || |||||||   | ||| |||||||
-----------------------------------------------------------------gtactatataatgcttacaaataggctcccaaa---aaatttctttcgttttctgagtgctagaggctaatataacacctaaatttgttgcgcagGTGGGATGAAGCTTTATATTTCAGACAACAAAGTGATCTTGACAGAAGGTTTTGATGGCGTCGTCCCGGTGAAATACTTTGAAAGAGTCGAAACATGGCC

upper sequence: GLYMA17G37310.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G092568_T02 (Zea mays), 3'ss of exon 4
gtatgatatgacaatattccaaacatgttctgaactgaatgtctacaagttcatcttgaaatgttggattttttgttgtctattgatagtgagtaaaatctacaacaaataagactactgatagctacttctctatatattttttcatcctatttc--agAAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGT------TTTGATGGTGTTGTTCCTGCCAAGTATTTTGAAAAGATAGAATCATGGCC
                                                      ||| ||     | | | | |  ||  ||   ||||      |||   | ||    |  |  | ||||  ||||       |||||     | |   | |  |  ||| || ||||||||||| ||||| |||||||| ||||||||||| ||||||      |||||||| ||||| ||||  || || |||||||  || ||| |      
-----------------------------------------------------acttaaag----gtactatataatgcttacaaataggcccccaaa---aaaattctttcgttttctgagtgctagaggctgatataacacctaaatttgtcgcgcagATGGGATGAAGCTTTATATTTCAGACAACAAAGTGATCTTGACAGAAGGTTTTGGTTTTGATGGCGTTGTCCCTGTGAAATACTTTGAAAGAATCGAAAC------

upper sequence: GLYMA17G37310.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G092568_T01 (Zea mays), 3'ss of exon 7
gtatgatatgacaatattccaaacatgttctgaactgaatgtctacaagttcatcttgaaatgttggattttttgttgtctattgatagtgagtaaaatctacaacaaataagactactgatagctacttctctatatattttttcatcctatttc--agAAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGTTT------TGATGGTGTTGTTCCTGCCAAGTATTTTGAAAAGATAGAATCATGGCC
                                                                 | | | | |  ||  ||   ||||      |||   | ||    |  |  | ||||  ||||       |||||     | |   | |  |  ||| || ||||||||||| ||||| |||||||| ||||||||||| ||||||||      |||||| ||||| ||||  || || |||||||  || ||| |      
-----------------------------------------------------------------gtactatataatgcttacaaataggcccccaaa---aaaattctttcgttttctgagtgctagaggctgatataacacctaaatttgtcgcgcagATGGGATGAAGCTTTATATTTCAGACAACAAAGTGATCTTGACAGAAGGTTTTGGTTTTGATGGCGTTGTCCCTGTGAAATACTTTGAAAGAATCGAAAC------

upper sequence: GLYMA17G37310.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv15s0048g00300.t01 (Vitis vinifera), 3'ss of exon 7
gtatgatatgacaatattccaaacatgttct-gaactgaatgtctacaagttcatcttgaaatgttggattttttgttgtctattgatagtgagtaaaatctacaacaaataagactactgatagctacttctctatatattttttcatcctatttcagAAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGTTTTGATGGTGTTGTTCCTGCCAAGTATTTTGAAAAGATAGAATCATGGCC
                        ||   ||  || | ||  |      || || ||     | | ||| ||     ||  |  |  | || |  |  ||     |   | || |||||| ||   |  ||| |  |      | | || | |||  ||| || |||||||| |||||||| ||||||||||| |||||||| |||||||||||||||||||| |||| |||||| ||||||||||||||||| |||||
----------------------gtatacccttaaattcaaaatgagttggtccaactc---ctataggagttcagaatgaatcctatttgtaa-cagtatgagagatgtagaacactactaatgcttttttccccgt-----ctctaattcaattgtagATGGAATGAAGCTCTACATTTCAGACAACAAGGTCATCTTGACCGAAGGTTTTGATGGTGTTGTGCCTGTCAAGTACTTTGAAAAGATAGAATCTTGGCC

upper sequence: GLYMA17G37310.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv15s0048g00280.t01 (Vitis vinifera), 3'ss of exon 7
gtatgatatgacaatattccaaacatgttctgaactgaatgtctacaagttcatcttgaaatgttggattttttgttgtctattgatagtgagtaaaatctacaacaa-ataagac-tactgatagctact----tctctatatattttttcatcctatttcagAAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGTTTTGATGGTGTTGTTCCTGCCAAGTATTTTGAAAAGATAGAATCATGGCC
                                    | ||  ||  || ||||   |||| || |  |  |  | | |    || | | ||| |   ||||  ||||  ||||||  |   ||   |||||      | |      | | | || | |||  ||| || |||||||| |||||||| ||||||||||| |||||||| |||||||||||||||||||| |||| |||||| ||||||||||||||||| |||||
------------------------------------gtatacctttaaattcaaaatgaattggtccaactcctatagga-gttcagaatgaatcctatctgtaacagtataagagatgtagaacactactaatgctttttccccgtctctaattcaattgtagATGGAATGAAGCTCTACATTTCAGACAACAAGGTCATCTTGACCGAAGGTTTTGATGGTGTTGTGCCTGTCAAGTACTTTGAAAAGATAGAATCTTGGCC

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|19453436|gb|BM954846.1|BM954846
EST:     GCAGGATGTCAATGTTCTGATCTTTCTAGACGTTAGAAAAGCATTAGAAG                         AAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGTT
genomic: GCAGGATGTCAATGTTCTGATCTTTCTAGACGTTAGAAAAGCATTAGAAGgtatgatatg ... cctatttcagAAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGTT
EST: gi|51337235|gb|CO981101.1|CO981101
EST:     GCAGGATGTCAATGTTCTGATCTTTCTAGACGTTAGAAAAGCATTAGAAG                         AAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGTT
genomic: GCAGGATGTCAATGTTCTGATCTTTCTAGACGTTAGAAAAGCATTAGAAGgtatgatatg ... cctatttcagAAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacaaataagactactgatagctacttctctatatattttttcatcctatttcagAAGGTATGAAGCTTTACATTTCTGACAACAAGGTGATCTTGACGGAAGGTTTTGATGGTGTTGTTCCTGCCAAGTATTTTGAAAAGATAGAATCATGGCC
            tactgat  putative branch site (score: 2)
                                    ttttttcatcctattt  putative PPT
                              tatatattttttcatc  TA-rich tract