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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctctatgatggatacactatatagggcttaatgtctatagttgcatcttttaagggcttaatgtgtattcagtttactagtctaaggtgcaaggttttgttgtcgatggcttctcaattttctgctacttgattgtgaaatttgtgcttcagattttactgctataattagcatcctttatgtgttatagGTAGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGACGAATATTGGAAAAAGTCAAAGTTGCCACATGCTACCATTTTTAAGCCCCAAC

Basic information

species Glycine max
transcript GLYMA13G28650.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G28650.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g27020.2 (Oryza sativa), 3'ss of exon 3
gtaatctctatgatggatacactatatagggcttaatgtctatagttgcatcttttaagggcttaatgtgtattcagtttactagtctaaggtgcaaggttttgttgtcg-atggcttctcaattttctgctacttgattgtgaaatttgtgcttcagattttactgctataattagcatcctttatgtgttatagGTAGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGACGAATATTGGAAAAAGTCAAAGTTGCCACATGCTACCATTTTTAAGCCCCAAC
                                                                                            |  |  |||||  | | |  | |||    |   ||  | | |||     | |||||   | ||   |||||     | ||||  |     | |         ||||||| ||| | |||||||| ||||| |||||||| || || || || || |||||||||||||| ||| ||||||||||||| || || || || || |
-------------------------------------------------------------------------------------------atttattgtttttatcttgtgttgctatatatgctttagttgctta--cataaaatt---gattgccattttctaattttaatatgtgcaatatgaactgatcagGTAGAACAGTTGCACAAGATTTTCAAGCTATGTGGCTCCCCCTCAGAGGAGTATTGGAAAAAGTCCAAGCTGCCACATGCTACAATATTCAAACCTCAGC

upper sequence: GLYMA13G28650.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G333433_T01 (Zea mays), 3'ss of exon 3
gtaatctctatgatggatacactatatagggcttaatgtctatagttgcatcttttaagggcttaatgtgtattcagtttactagtctaaggtgcaaggttttgttgtcgatggcttctcaattttctgctacttgattgtgaaatttgtgcttcagattttactgctataattagcatcctttatgtgttatagGTAGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGACGAATATTGGAAAAAGTCAAAGTTGCCACATGCTACCATTTTTAAGCCCCAAC
                                                                                |    | | ||        | |  ||||  |  | || | | ||      | |||   | ||| ||||    ||    ||| | ||         |  ||     ||| || ||||| || ||||| || || || || || |||||||| |||||  | || |||||||||||||| ||||||||||| ||||| || || |||||||||||||
-------------------------------------------------------------------------------cagacatttcagtgatggtctatgtttgttcacagtttttaatttcatcaattcttttctatgatatttccattt---gtttgattgt--------gtgtc-----tgtcttctagGTGGAACAGCTGCATAAAATTTTTAAGCTATGTGGCTCTCCGACAGAAGAATATTGGAAAAAATCAAAGTTGCCTCATGCAACTATATTTAAGCCCCAAC

upper sequence: GLYMA13G28650.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G873277_T01 (Zea mays), 3'ss of exon 3
gtaatctctatgatggatacactatatagggcttaatgtctatagttgcatcttttaagggcttaatgtgtattcagtttactagtctaaggtgcaaggttttgttgtcgatggcttc--tcaattttctgctacttgattgtgaaatttgtgcttcagattttactgctataattagcatcctttatgtgttatagGTAGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGACGAATATTGGAAAAAGTCAAAGTTGCCACATGCTACCATTTTTAAGCCCCAAC
                                                                                               |  |||| || |   ||   |||  |||   || |  |  | | |  |    ||    | | | |||||  |  | | ||| |     | | ||| ||  |||| || ||||| || || || || || |||||||| |||||  |||| |||||||||||||| ||||||||||| ||||| || || |||||||| ||||
------------------------------------------------------------------------------------------ttcagacagtttagtaggtcatatgttcagtcacaatttttattttcggtcattgctttc---catgatattttctttttttgattggg----tgtttgtctttcagGTGGAACAGCTGCATAAAATTTTTAAGCTATGTGGCTCTCCGACTGAAGAATATTGGAAAAAATCAAAGTTGCCCCATGCAACTATATTTAAGCCTCAAC

upper sequence: GLYMA13G28650.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G156251_T01 (Zea mays), 3'ss of exon 3
gtaatctctatgatggatacactatatagggcttaatgtctatagttgcatcttttaagggcttaatgtgtattcagtttactagtctaaggtgcaaggttttgttgtcgatggcttctcaattttctgctacttgattgtgaaatttgtgcttcagattttactgctataattagcatcctttatgtgttatagGTAGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGACGAATATTGGAAAAAGTCAAAGTTGCCACATGCTACCATTTTTAAGCCCCAAC
                                                                                      ||  | || |  ||    || |   | |  |  ||  |||     | |||| ||  |    | ||  ||      ||||| || || | | ||      | | |   |||| || ||| | |||||||| ||||| ||||||||||| |||||||| || || ||||| ||||| || |||||||| || || || || || || ||||
--------------------------------------------------------------------------------------cttggatgaatagtgcgctttt---tagtctgccatatttgcttaatttgaatgcaactactttgtctc------tactgttaaaactgggatgtacactatttgccagGTGGAACAGTTGCACAAGATTTTCAAGCTATGTGGTTCCCCTTCTGAGGAGTACTGGAAGAAGTCTAAATTGCCACACGCAACAATATTCAAACCTCAAC

upper sequence: GLYMA13G28650.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g01890.t01 (Vitis vinifera), 3'ss of exon 3
gtaatctctatgatggatacactatatagggcttaatgtctatagttgcatcttttaagggcttaatgtgtattcagtttactagtctaaggtgcaaggttttgttgtcgatggcttctcaat-tttctgct--acttgattgtgaaatttg--tgcttcagattttactgcta-taattagcatcctttatgtgttatagGTAGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGACGAATATTGGAAAAAGTCAAAGTTGCCACATGCTACCATTTTTAAGCCCCAAC
                                                                                                ||| |||||||   ||   ||||   | ||| || |  ||   ||| |||||   |  | |  | | || || ||||  |||  |   || ||| |||| |  |||| |||||||||||||||||||| || |||||||| ||||||||||| ||||| |||||||| ||||||||||| ||||| ||||| |||||||| ||||
------------------------------------------------------------------------------------------------agggtttgttg--aat--tttctaggtgtttgtggtggacccaattttgaaacaagagtacagctgcttctattgctgctaaaaattttcttttgtgtgct-cagGTGGAGCAGCTACACAAGATATTTAAGCTATGTGGCTCTCCTTCTGAAGAATACTGGAAAAAATCAAAGTTGCCGCATGCAACCATATTTAAGCCTCAAC

upper sequence: GLYMA13G28650.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S428_20V6.1 (Physcomitrella patens), 3'ss of exon 3
gtaatctctatgatggatacactatatagggcttaatgtctatagttgcatcttttaagggcttaatgtgtattcagtttactagtctaaggtgcaaggttttgttgtcgatggcttctcaattttctgctacttgattgtgaaatttgtgcttcagattttactgctataattagcatcctttatgtgtta-tagGTAGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGACGAATATTGGAAAAAGTCAAAGTTGCCACATGCTACCATTTTTAAGCCCCAAC
                                                                                            |      | |||  || | |      |  | |   |||   | | |||| | ||  ||  ||   ||||           || | | |    || || |   |||| || || || || ||||| |||||  |||| |||||||| || || || ||||||||||||||||| ||||| || ||||| || || ||||| ||||
--------------------------------------------------------------------------------------------ttttccctcttgcggtggctacagattggagtagatgcgtttgggttgtaagatg-gtattt--aatttagagaacgggtttggta-cgggaatatggtggcagGTGGAACAACTTCATAAGATCTTCAAGTTATGCGGTTCTCCGTCCGAGGAGTATTGGAAAAAGTCAAAATTGCCGCACGCTACGATATTCAAGCCTCAAC

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|151397025|gb|EV266898.1|EV266898
EST:     TTCTTGCTGAATTATTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAG                         GTAGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGACGAA
genomic: TTCTTGCTGAATTATTGGCTGGAAAGCCTATTATGCCTGGTCGAACAGAGgtaatctcta ... tgtgttatagGTAGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGACGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaatttgtgcttcagattttactgctataattagcatcctttatgtgttatagGTAGAGCAGCTACACAAGATATTCAAACTATGTGGTTCTCCTTCTGACGAATATTGGAAAAAGTCAAAGTTGCCACATGCTACCATTTTTAAGCCCCAAC
                                      tcctttat  CT-rich tract
                           tataatta  TA-rich tract