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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagctattcattctattatgatggcatggatatgagatgcatgtcattttaatcctccttttaaattttaattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACTCAGTTTCCTTTGTTACATTAAACAAGGT

Basic information

species Glycine max
transcript GLYMA12G28670.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G28670.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0035g01130.t01 (Vitis vinifera), 3'ss of exon 7
-----------gtatagctat--tcattctattatgatggcatggatatgagatgcatgtcattttaatcctccttttaaattt-----taattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACTCAGTTTCCTTTGTTACATTAAACAAGGT
              | |||||  |   ||| || |       |   | |   | |  |   | ||| |   ||    | ||| |     | ||| ||||||||| ||||||||||||||||| |||||||| ||||| |||||||||||||||||||||||||| |||||  | || || || || ||  | ||||||||
gcctagttgataagttgctatggttgctctgttttctacttctcattcttcaaggtttaaaactttgaagttcacaatgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGACGAGAATACCGTCTCATTCGTAACTCTGAACAAGGT

upper sequence: GLYMA12G28670.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0035g01120.t01 (Vitis vinifera), 3'ss of exon 3
-----------------gtatagctattcattctattatgatggcatggatatgagatgcatgtcattttaatcctccttttaaatttt---aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACTCAGTTTCCTTTGTTACATTAAACAAGGT
                  ||| | |  ||  | || ||   |  |||   |   || |  |   | ||  | | | |  |  | || ||    ||| ||||||||| ||||||||||||||||| |||||||| ||||| |||||||||||||||||||||||||  |||||  | || || || || ||  | | ||||||
gcctagttgataagttgctatggttgctctgtttactact-tctcattc-ttcaaggtttaaaactttgaagttcacaatgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT

upper sequence: GLYMA12G28670.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S172_22V6.1 (Physcomitrella patens), 3'ss of exon 5
----------------------------gtatagctattcattctattatgatgg---catggatatgagatgcatgtcattttaatcctccttttaa-----------attttaattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACTCAGTTTCCTTTGTTACATTAAACAAGGT
                             | |||    ||| |||  ||    |    ||||  ||||       | |          ||  |  |||             || ||| |  ||||||| ||||| |||| |||| | ||||| |  ||  ||||||||||||||||||| |||||||||||||||  |||  | || || ||  | || |||||
gtacgtcttctaatgagcatatgatttaatttagagcctcagtctgatactgagcacccatgcttatggagaatgtcttgaccctcggcttgtgctaacgtggtggacgggttgaatatgccagGATTCTGGGAAATGTTCGATGCTGAGGGTTGGTCATTGTGGTTCTGTGATTACAAGTACAATGATGAGAACCAAGTCACTTTCGTGACCATGAATAAGGT

upper sequence: GLYMA12G28670.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S33_218V6.1 (Physcomitrella patens), 3'ss of exon 6
-----gtatagctattc-attctattatgatggcatggatatgagatgcat--gtcattttaatc----------ctccttttaaattttaattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACTCAGTTTCCTTTGTTACATTAAACAAGGT
      | |||  |||| | |||     |   |  ||  | |   |||  |  | | |||    |          ||  |||     ||  || | |||||||| ||||| |||| |||  | || || || ||| ||||||||||||||||||| |||||||| ||||||  |||  ||||||| ||  | || || ||
gcactttttagtcattctagtctgcagagtcagagtgtttctctcatgtctcggacgtttggggctgatagtgagctaatttggtggttgtatgtggcagGATTCTGGGAAATGTTCGACGCTGAAGGTTACTCTTTGTGGTTCTGTGATTACAAGTACAATGACGAGAACCAAGTAACCTTTGTGACTATGAATAAAGT

upper sequence: GLYMA12G28670.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S71_218V6.1 (Physcomitrella patens), 3'ss of exon 7
------------------------------------------------gtatagctattcattct-attatgatggcatg-gatatgagatgcatgtcattttaatcctccttttaaattttaattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACTCAGTTTCCTTTGTTACATTAAACAAGGT
                                                 | ||   |||    || ||| |  | |||   |||  | |   ||| | || || ||       ||   ||  | |    |||| |||||||| |||| |||| | ||||| |  ||  ||||||||||||||||||||||||| |||||||||  |||  | ||||| ||  | ||||||||
gtaagtttctattaatgaactcatgatttgagttatggttgtggcacaatttaatgatttgcactcattcttttcgcaaatgattggtgtctcatcttatgttcatgtggtggttctgttg-agtgcaacagGTTTTTGGGAAATGTTCGATGCTGAGGGTTGGTCATTGTGGTTCTGTGATTACAAATACAACGATGAGAACCAAGTAACATTTGTGACTATGAACAAGGT

upper sequence: GLYMA12G28670.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S132_188V6.1 (Physcomitrella patens), 3'ss of exon 6
-------------------gtatagctattcattctattatgatggcatggatatgagatgcatgtcattttaatcctccttttaaattttaattttg-cagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACTCAGTTTCCTTTGTTACATTAAACAAGGT
                   | ||  | |      |   || | |  | || |  | | ||   || |     | |  |  |  | |   ||  || || |||| || ||||| |||| |||| | || || || ||  ||||||||||||||||||| ||||||||||| |||  |||| | ||||| ||  | ||||||||
gtttttgaatctgcactctggatttcgaaaatgccctctacgtt--cctgaaatttaaatttgtgccgacccattaatattgctgatgattgcttgtgacagGTTTCTGGGAGATGTTCGATGCTGAAGGTTACTCATTGTGGTTCTGTGATTACAAGTACAATGATGAAAACCAAGTTACGTTTGTGACCATGAACAAGGT

upper sequence: GLYMA12G28670.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ14564 (Selaginella moellendorffii), 3'ss of exon 6
gtatagctattcattctattatgatggcatggatatgagatgcatgtcattttaatcctccttttaaattttaattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACTCAGTTTCCTTTGTTACATTAAACAAGGT
||| |  |  |  ||| |||  ||| || || | |||         | ||||| ||||       |||| ||     ||||||||| ||||| ||||| || || |||||||| || ||||||||||| || ||||| ||||| ||||||||| | ||  | || || ||  | ||||||||
gtacaagtggtgtttccatt--gatcgcttgaaaatg--------ctgattttgatccc------aaatctt-----tgcagGATTCTGGGAGATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT

upper sequence: GLYMA12G28670.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ26267 (Selaginella moellendorffii), 3'ss of exon 5
gtatagctattcattctattatgatggcatggatatgagatgcatgtcattttaatcctccttttaaattttaattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACTCAGTTTCCTTTGTTACATTAAACAAGGT
                  |     |||  |    ||     || ||  |     || ||  || | |  | |    |||||||||| ||||||||||| || || |||||||| || ||||||||||| || ||||| ||||| ||||||||| | ||  | || || ||  | ||||||||
-----------------gtacaagtggtgtttccattgatcgcttgaaa-----atgctgattctgatctcttcccttgcagGATTCTGGGACATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT

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|254316506|gb|GR828043.1|GR828043
EST:     AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|23728339|gb|BU762221.1|BU762221
EST:     AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|15663835|gb|BI701206.1|BI701206
EST:     AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|254327984|gb|GR834949.1|GR834949
EST:     AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|208024777|gb|GD825107.1|GD825107
EST:     GGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: GGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|151401866|gb|EV271679.1|EV271679
EST:     AAGACTCTACTCAAACACCAAGACCGACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|31468999|gb|CD411027.1|CD411027
EST:     AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|254347343|gb|GR853592.1|GR853592
EST:     AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|151401022|gb|EV270836.1|EV270836
EST:     AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|192315108|gb|FK009932.1|FK009932
EST:     AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|31465762|gb|CD407790.1|CD407790
EST:     ACCAACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: ACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|192325487|gb|FK018413.1|FK018413
EST:     AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|10253933|gb|BE821748.1|BE821748
EST:     AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
EST: gi|208120967|gb|GD917038.1|GD917038
EST:     AAGACTCTACTCAAACACCAAGACCAACTTCCGCGAGGTTGCAATCAAAG                         GATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT
genomic: AAGACTCTACTCAAACACCAAGACCAACTTCCGGGAGGTTGCAATCAAAGgtatagctat ... aattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catggatatgagatgcatgtcattttaatcctccttttaaattttaattttgcagGATTTTGGGACATGTACGATCCAGAGGGATATTCTCTGTGGTTCTGTGATTACAAATACAATGATGAGAACTCAGTTTCCTTTGTTACATTAAACAAGGT
                                         ttttaat  putative branch site (score: 3)
                     attttaatcctccttt  TA-rich tract