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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttaacctaatctcttgctcttttttaacattgtaatacttaattaatcagtctggcttaatacttgtaattcaagaaacaagaatcagcttgagttgtcaacaattgttgtgtgtatctttatattttgactcgtgggtaacactttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTCTCAGGCCTATTGTTCATGGCCAGACTCTGAAATACAACATGAAAGTCAG

Basic information

species Glycine max
transcript GLYMA16G17370.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G17370.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G145280_T01 (Zea mays), 3'ss of exon 2
gtaatttaacctaatctcttgctcttttttaacattgtaatacttaattaatcagtctggcttaatacttgtaattcaagaaacaagaatcagcttgagttgtcaacaattgttgtgtgtatctttatattttgactcgtgggtaacactttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTCTCAGGCCTATTGTTCATGGCCAGACTCTGAAATACAACATGAAAGTCAG
                                                         |    ||||  |  | ||  | ||| |||||   |  ||   || |   ||||  |||  | ||   || || || ||| |     |      | | ||||||| || ||||||||||| ||||| |||||| | || ||||||||  ||||  | || ||||||||  |||||||| | || |||||||||||    ||
---------------------------------------------------------tactataatgatattgatgaaggaaccaagatgaatgttcgcttttactcaataattgcttctacacttctaattggaccctgtaatgttctgtatgcagCTCGTCAAAAGAAGGCTGTGAAGATATTCCCCCGCCCGACTGCTGGTCCTCTACGCCCCATTGTTCAATGCCAGACTTTAAAGTACAACATGAAGTCAAG

upper sequence: GLYMA16G17370.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G49010.5 (Arabidopsis thaliana), 3'ss of exon 2
gtaatttaacctaatctcttgctcttttttaacattgtaatacttaattaatcagtctggc-ttaatacttgtaattcaagaaacaagaatcagcttgagttgtca--acaattgttgtgtgtatctttatattttgactcgtgggtaacactttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTCTCAGGCCTATTGTTCATGGCCAGACTCTGAAATACAACATGAAAGTCAG
                                               ||| |     |    | || |||| | ||   |    || |  ||   || ||||  ||  |||||   | || || |  |||| || ||  | ||     ||||      |||  |||| ||||||||||| ||||| |||||  | || ||| ||||| ||||| | ||| |||| ||||| |||||||| || ||||||||||| |||||
----------------------------------------------gttagtagtagtaatgtcaacacttctgat---attgtcatgtttcgttttaagtttacactacaatctctttgggtcttattatgttatg--ttgt-----acac------agCGAGGCAAAAGAAGGCTGTGAAGATCTTCCCTCGTCCAACTTCTGGACCTCTCCGCCCTGTTGTGCATGGTCAGACTCTTAAGTACAACATGAAGGTCAG

upper sequence: GLYMA16G17370.2 (Glycine max), 3'ss of exon 1
lower sequence: AT5G23900.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaatttaacctaatctcttgctcttttttaacattgtaatacttaattaatcagtctggcttaatacttgtaattcaagaaacaagaatcagcttgagttgtcaacaattgttgtgtgtatctttatattttgactcgtgggtaacactttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTCTCAGGCCTATTGTTCATGGCCAGACTCTGAAATACAACATGAAAGTCAG
                                               ||| | |    | ||  | | ||   | |  |        ||| |  ||  | | | ||   |  | |||| | | | | |  | |||   ||         ||| |||||| | |||||||||||||| ||||| |||||  | || ||  ||||  ||||| | ||| |||||||||| ||||| || || |||||||||||||| ||
----------------------------------------------gttagtaaa---gtctctacattttctacttta--------aatgatttt--gctcttaattttaatagtgtatgtttcttttgtgtgatgtgt---------tttctcagCTAGACAGAAGAAGGCTGTGAAGATCTTCCCTCGTCCCACCTCTGGTCCTCTCCGACCTGTTGTTCATGGTCAGACACTTAAGTACAACATGAAAGTTAG

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|254339157|gb|GR847874.1|GR847874
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|209719490|gb|BW650995.1|BW650995
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|20207618|gb|BQ133707.1|BQ133707
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|16348456|gb|BI974051.1|BI974051
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|13787483|gb|BG650075.1|BG650075
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|14008646|gb|BG725250.1|BG725250
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCGC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|120529623|gb|EH257757.1|EH257757
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|23726992|gb|BU761509.1|BU761509
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|6915365|gb|AW396895.1|AW396895
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|14011613|gb|BG726535.1|BG726535
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|213594019|gb|DB961935.1|DB961935
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|9204549|gb|BE330773.1|BE330773
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|18040171|gb|BM308465.1|BM308465
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|12688119|gb|BG154455.1|BG154455
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|207797429|gb|GD771227.1|GD771227
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGGCCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|26047262|gb|CA784114.1|CA784114
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|151402405|gb|EV272218.1|EV272218
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
EST: gi|17400476|gb|BM177258.1|BM177258
EST:     TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGG                         CTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC
genomic: TGTGAAGACTTGGTTTAATCAACCAGCCCGAAAGACCAGAAGACGGTTGGgtaatttaac ... actttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaacaattgttgtgtgtatctttatattttgactcgtgggtaacactttttcagCTCGGCAGAAGAAGGCTGTCAAGATTTTCCCCAGGCCTACTGCTGGATCTCTCAGGCCTATTGTTCATGGCCAGACTCTGAAATACAACATGAAAGTCAG
                                      gggtaac  putative branch site (score: 3)
                                            cactttttc  CT-rich tract
               tgtatctttatatttt  TA-rich tract