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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttactgtaaaattgttatcatcaaatatgtttattattttgagataaggaggctgggagcttttatgtagatattgaatttaattttattcgtgcagGGTTATAAGGATTTCACCTTTTGCAAATAGATTGTCGTTTGATGCTCCTTCAGTTGTCCAGCATCTTAGATGCTTAGCAAATTATGAGGCTTTACGGTTT

Basic information

species Glycine max
transcript GLYMA20G02130.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G02130.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g62390.1 (Oryza sativa), 3'ss of exon 2
----------------------------atttt----actgtaaaattgtta--tcatcaaatatgtttattattttgagataaggaggctgggagcttttatgtagatattgaatttaattttattcgtgcagGGTTATAAGGATTTCACCTTTTGCAAATAGATTGTCGTTTGATGCTCCTTCAGTTGTCCAGCATCTTAGATGCTTAGCAAATTATGAGGCTTTACGGTTT
                             || |    | ||||| | ||||   |  | | ||||| |        |   | ||   | ||| ||  | | || |   |||||  ||||  | ||    |  ||| |||||||||| ||||||||||||||  || |||| ||||||||||| |||| ||| || |   | |||||  | || |||| ||| || |||  ||||
gtaggttaaagccaattttgttattgtagttctgaagaatgtaagaatgttgacttgtgatatatgatagagtaaatttcacaaaccgactgtgatatatgatattt-tattgcttttatctgtacat-tatagGCTTATAAGGATATCACCTTTTGCAAACCGACTGTCCTTTGATGCTCCATCAGCTGTTCAACGGTTGAGATGTCTGGCTAATTTTGAAGCCTTAAAGTTT

upper sequence: GLYMA20G02130.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G14970.1 (Arabidopsis thaliana), 3'ss of exon 5
-----------------attttactgtaaaattgttatcatca-aatatgtt-tattattttgagataaggaggctgggagctt------ttatgtagatattgaatttaattttattc-------gtgcagGGTTATAAGGATTTCACCTTTTGCAAATAGATTGTCGTTTGATGCTCCTTCAGTTGTCCAGCATCTTAGATGCTTAGCAAATTATGAGGCTTTACGGTTT
                    | |||   ||| | |  |   || |||| | | | || ||||    ||||| |      |   |       ||    ||| |||||||   | || |         |  |||||||||||| ||||| || |||||||||||| | |||||||||||||||  || |||||||    ||||||| || || ||| |||  || || || |||
gtgagtcacacctcttttgctaactaataaactttagtttccataataagctgtcttgtttttgtgtaaggggctctttattctgttatactacactgattttgaattgtttgttgtcttttgacggcacagGGTTATAAGAATTTCCCCATTTGCAAATAGACTTTCGTTTGATGCTCCTCGAGCTGTCCAGAGATTTAGATGTTTGGCGAATAATGTAGCCTTGCGATTT

upper sequence: GLYMA20G02130.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv01s0011g05000.t01 (Vitis vinifera), 3'ss of exon 5
------------------------------------------------------------------------------attttactgtaaaattgttatca---tcaaatatgtttattattttgagataaggaggctgggagcttttatgtagatattgaattta-attttattcgtgcagGGTTATAAGGATTTCACCTTTTGCAAATAGATTGTCGTTTGATGCTCCTTCAGTTGTCCAGCATCTTAGATGCTTAGCAAATTATGAGGCTTTACGGTTT
                                                                                | ||   |||||||  |   |   |   || |  |  ||  ||     | ||  |  |      | || |  |  |||  | |||  |||| | |    |||| | ||||||||||| |||||||| ||| ||||||| |||||||||||| |||  ||||| |  ||||||||||| || |||||||| |||||| |||||
gtgagtcaagagtaccagcatttttgtttttctactgattatttaatgttaaaaaagttccatctcaaacaatcaagtgctgtaacttaaaatttcttagagacttggatttagtggttccttaacagtgagctgtgttcattatgttgttgaagtatctattttgtatttcaatgactcagGCTCATAAGGATTTCTCCTTTTGCGAATCGATTGTCATTTGATGCTCCTCCAGCAGTCCAACGGCTTAGATGCTTGGCTAATTATGAAGCTTTAAGGTTT

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|19052540|gb|BM731207.1|BM731207
EST:     TCTATTCAGTATTACAGAGATGTGGTACTCCCTAAGTTACTTGAAGAAAA                         GGTTATAAGGATTTCACCTTTTGCAAATAGATTGTCGTTTGATGCTCCTTC
genomic: TCTATTCAGTATTACAGAGATGTGGTACTCCCTAAGTTACTTGAAGAAAAgtgagtatat ... attcgtgcagGGTTATAAGGATTTCACCTTTTGCAAATAGATTGTCGTTTGATGCTCCTTC
EST: gi|6134628|gb|AW133021.1|AW133021
EST:     TCTATTCAGTATTACAGAGATGTGGTACTCCCTAAGTTACTTGAAGAAAA                         GGTTATAAGGATTTCACCTTTTGCAAATAGATTGTCGTTTGATGCTCCTTC
genomic: TCTATTCAGTATTACAGAGATGTGGTACTCCCTAAGTTACTTGAAGAAAAgtgagtatat ... attcgtgcagGGTTATAAGGATTTCACCTTTTGCAAATAGATTGTCGTTTGATGCTCCTTC
EST: gi|12490081|gb|BG043602.1|BG043602
EST:     TCTATTCAGTATTACAGAGATGTGGTACTCCCTAAGTTACTTGAAGAAAA                         GGTTATAAGGATTTCACCTTTTGCAAATAGATTGTCGTTTGATGCTCCTTC
genomic: TCTATTCAGTATTACAGAGATGTGGTACTCCCTAAGTTACTTGAAGAAAAgtgagtatat ... attcgtgcagGGTTATAAGGATTTCACCTTTTGCAAATAGATTGTCGTTTGATGCTCCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataaggaggctgggagcttttatgtagatattgaatttaattttattcgtgcagGGTTATAAGGATTTCACCTTTTGCAAATAGATTGTCGTTTGATGCTCCTTCAGTTGTCCAGCATCTTAGATGCTTAGCAAATTATGAGGCTTTACGGTTT
                                   atttaat  putative branch site (score: 4)
                                         ttttattc  CT-rich tract
                  ttttatgtagatattg  TA-rich tract