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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctctgaattttaggtccatgtagaaactataaagtgatgtacttttgctttgacagtaaagattgatcgattttcctttgatcattattgttcaacttcttcatgcacccttactatctgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGCAGATTTTTCTTGCTTTGCAGACCTTGCACTTTCATCTCCAGAAGATTAT

Basic information

species Glycine max
transcript GLYMA20G37170.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G37170.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os07g10490.1 (Oryza sativa), 3'ss of exon 10
-----------------------gtaagtctctgaatttta----ggtcc---atgtagaaactata-------aagtgatgtacttttgctttgac--agtaaagattgatcgattttcctttgatcattattgttcaacttcttcatgcacccttactatctgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGCAGATTTTTCTTGCTTTGCAGACCTTGCACTTTCATCTCCAGAAGATTAT
                       || || |    | |||||     | ||   ||| | | | ||||       |      || | |||| ||  ||  |  || |   |  | | |    | || |  ||    |    ||   | || | | ||   |||||       || | ||||   || || ||||| |||||||| |||||||| || || |||||||||||||| || ||| |||||||||||||||||||||| |  || || 
gtaactccagtctcccctccccagttagcccaatatttttatcaatgcccgtgatgcacacattatattttttcataaagagtgcatttgtttgtactgaacaatggccgtacaaatgcagtctgcttttttgcatgatgctgaatgatac-ctctgtttatctttgatgtagACAACTGAAAAAGGCAGTTGGCTTGGATAATCTTCTCTACACTCCAGATGCAGATTTTTCATGTTTTTCAGACCTTGCACTTTCATCTCCTGCTGACTAC

upper sequence: GLYMA20G37170.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 10
----------------------------------------gtaagtctctgaattttaggtccatgtagaaactataaagtgatgtacttttgctttgacagtaaa-gattgatcg-----------attttcct----ttgatcattattgttcaacttcttcat--gcacccttactatctgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGCAGATTTTTCTTGCTTTGCAGACCTTGCACTTTCATCTCCAGAAGATTAT
                                         | | |         |||| |      || ||  || ||  ||| | |||||| ||  ||  ||   |  | || |           || |||||    || || | |  | | ||| ||  | |     |     ||  |  || ||  |||| | || | |||||||  ||||||||||| || || || || || || ||||| || ||||||||||| || || ||||||||||||||||||||||| 
gtgatcctctcatctaaagtgtagtcactggcttatgaaattgaatgctcttgccttagctttgaagagcaaggattaa--gatttccttttgtttgtaccttatgtggctaattgttaagaattttatattcctgttcttcattaatcctttgcaagttggttactgaaaattccacattgggactggtagGCAATTGAGAAAAGCTGCAGGGTTGGATAATCTCCTTTACACCCCAGACGCAGACTTCTCTTGCTTTGCCGATCTAGCACTTTCATCTCCAGAAGATTAC
















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|10236984|gb|BE805872.1|BE805872
EST:     CTTAGATACAATGGTTGGGTTACAGAGTTGCAGGATCTAGAAAAGTCAAG                         GCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGC
genomic: CTTAGATACAATGGTTGGGTTACAGAGTTGCAGGATCTAGAAAAGTCAAGgtaagtctct ... tgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGC
EST: gi|254340371|gb|GR858496.1|GR858496
EST:     CTTAGATACAATGGTTGGGTTACAGAGTTGCAGGATCTAGAAAAGTCAAG                         GCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGC
genomic: CTTAGATACAATGGTTGGGTTACAGAGTTGCAGGATCTAGAAAAGTCAAGgtaagtctct ... tgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGC
EST: gi|120496009|gb|EH224176.1|EH224176
EST:     CAGGATCTAGAAAAGTCAAG                         GCGACTGGGGAAAGCTGTTGGNTTGGATAACCTTCTCTATACACCCGATGC
genomic: CAGGATCTAGAAAAGTCAAGgtaagtctct ... tgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGC
EST: gi|254340372|gb|GR858497.1|GR858497
EST:     TGGGTTACAGAGTTGCAGGATCTAGAAAAGTCAAG                         GCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGC
genomic: TGGGTTACAGAGTTGCAGGATCTAGAAAAGTCAAGgtaagtctct ... tgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGC
EST: gi|151398068|gb|EV267946.1|EV267946
EST:     CTTAGATACAATGGTTGGGTTACAGAGTTGCAGGATCTAGAAAAGTCAAG                         GCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGC
genomic: CTTAGATACAATGGTTGGGTTACAGAGTTGCAGGATCTAGAAAAGTCAAGgtaagtctct ... tgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGC
EST: gi|120495894|gb|EH224061.1|EH224061
EST:     GGTTACAGAG-TGCAGGATCTAG-AAAGTTCAAG                         GCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATG
genomic: GGTTACAGAGTTGCAGGATCTAGAAAAG-TCAAGgtaagtctct ... tgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATG
EST: gi|193403381|gb|FK367703.1|FK367703
EST:     CTTAGGTACAATGGTTGGGTTACAGAGTTGCAGGATCTAGAAAAGTCAAG                         GCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGC
genomic: CTTAGATACAATGGTTGGGTTACAGAGTTGCAGGATCTAGAAAAGTCAAGgtaagtctct ... tgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGC
EST: gi|7691632|gb|AW759756.1|AW759756
EST:     CTTAGATACAATGGTTGGGTTACAGAGTTGCATGATCTAGANAAGTCAAG                         GCGACTGGGGAAAGCTGTTGG
genomic: CTTAGATACAATGGTTGGGTTACAGAGTTGCAGGATCTAGAAAAGTCAAGgtaagtctct ... tgaatgacagGCGACTGGGGAAAGCTGTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctttgatcattattgttcaacttcttcatgcacccttactatctgaatgacagGCGACTGGGGAAAGCTGTTGGGTTGGATAACCTTCTCTATACACCCGATGCAGATTTTTCTTGCTTTGCAGACCTTGCACTTTCATCTCCAGAAGATTAT
                                  cccttac  putative branch site (score: 3)
       atcattatt  TA-rich tract