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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgagggtattagtgatgcacttcaaaaagagtaagtgtttctcttgctttactttatcaaaaaaataatgtatgatatgttttattattgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCAAAGGACTGGATGTGATTCAACAGGCTCAGTCTGGAACAGGAAAGACAGC

Basic information

species Glycine max
transcript GLYMA08G20300.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20300.2 (Glycine max), 3'ss of exon 3
lower sequence: AT1G54270.2 (Arabidopsis thaliana), 3'ss of exon 3
-----catgagggtatta-gtgatgcacttcaaaaagagtaag----tgtttctcttgctttactt--tatcaaaaaaataatgtatgatatgttttattattg------------tttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCAAAGGACTGGATGTGATTCAACAGGCTCAGTCTGGAACAGGAAAGACAGC
      |||       || |||| | |  |  |||  |  ||     ||||| |  || |    ||  ||| ||    ||  | | || | | |  | | ||||            ||||  |||||| || | |||||||||||| |||||||| |||||||| || || ||||| || || |||||||| || ||||| |||||||| || ||||| || ||
gtatctatgcttacggtaagtgaagaaggtttaaagaaacaaccttttgtttgttatgttgggattcctattaactttatcgtatgtgctctttcctgtgattgattggttgatttttttctagGTTTCGAAAAGCCTTCTGCTATTCAGCAAAGAGGAATTGTACCCTTTTGCAAGGGTCTTGATGTGATCCAGCAGGCACAGTCTGGTACTGGAAAAACCGC

upper sequence: GLYMA08G20300.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G13920.4 (Arabidopsis thaliana), 3'ss of exon 3
--------catgagggtattagtgatgcacttcaaaaagagtaagtgtttctcttgctttactttatcaaa-aaaataatgtatgatatgttttattattgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCAAAGGACTGGATGTGATTCAACAGGCTCAGTCTGGAACAGGAAAGACAGC
          | | |||||  |||  | |  |  ||||    |  | | | |  || ||||  |  |  |  | || | | | | ||  ||  |  | || ||| | ||||||||||| |||||||||||| |||||||| ||||| || || ||||| || || || |||||||||||||||||||||||||| || || || |||||
gtatttatgcttatggtatgtgtgtaggaacttgaaaa----agctatcttttgtgatttatgtcttagattagaacattatctcatgcgtgcttctgttttttcttagGTTTTGAGAAGCCTTCTGCTATTCAGCAAAGAGGAATCGTCCCCTTCTGTAAGGGTCTTGATGTGATTCAACAGGCTCAGTCTGGTACTGGGAAAACAGC

upper sequence: GLYMA08G20300.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G13920.2 (Arabidopsis thaliana), 3'ss of exon 3
catgagggtattagtgatgcacttcaaaaagagtaagtgtttctcttgctttactttatcaaa-aaaataatgtatgatatgttttattattgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCAAAGGACTGGATGTGATTCAACAGGCTCAGTCTGGAACAGGAAAGACAGC
       ||||  |||  | |  |  ||||    |  | | | |  || ||||  |  |  |  | || | | | | ||  ||  |  | || ||| | ||||||||||| |||||||||||| |||||||| ||||| || || ||||| || || || |||||||||||||||||||||||||| || || || |||||
-------gtatgtgtgtaggaacttgaaaa----agctatcttttgtgatttatgtcttagattagaacattatctcatgcgtgcttctgttttttcttagGTTTTGAGAAGCCTTCTGCTATTCAGCAAAGAGGAATCGTCCCCTTCTGTAAGGGTCTTGATGTGATTCAACAGGCTCAGTCTGGTACTGGGAAAACAGC

upper sequence: GLYMA08G20300.2 (Glycine max), 3'ss of exon 3
lower sequence: AT1G72730.1 (Arabidopsis thaliana), 3'ss of exon 3
------------------------------------catgagggtattagtgatgc--acttcaaaaagagtaagtgtttctctt---gctt--tactttatcaaaaaaataatgtatgatatgttttattattgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCAAAGGACTGGATGTGATTCAACAGGCTCAGTCTGGAACAGGAAAGACAGC
                                    |||      |||  |  ||   | ||    |        ||||| | |    ||||  |||| |  |    ||| ||  |   ||  ||||| |||||  |  | |||||| |||| |||||||||||| |||||||| |||||| |||| |||||||| || || |||||||| || || ||||| |||||||| |||||||| ||
gtaagtgaagtatttcctttgagaacacattctatacataccttcattgtttctgtctagttttgtattttcttttgtttgtttcaaagcttagtactgttactcttaaacaacctcatattggttttgttatttatcattagGTTTCGAGAAGCCTTCTGCTATTCAGCAAAGAGGAATTATTCCATTCTGCAAGGGTCTTGATGTGATCCAGCAAGCTCAATCTGGAACTGGAAAGACCGC

upper sequence: GLYMA08G20300.2 (Glycine max), 3'ss of exon 3
lower sequence: AT1G54270.1 (Arabidopsis thaliana), 3'ss of exon 3
------catgagggtattagtgatgcacttcaaaaagagtaagtgtttctcttgctttactttatcaaaaaaataatgt---atgatatgttttattattgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCAAAGGACTGGATGTGATTCAACAGGCTCAGTCTGGAACAGGAAAGACAGC
       | || ||| | |   |   || |         || ||     |     || ||||||||  |       | |    ||||   ||   | ||| ||||  |||||| || | |||||||||||| |||||||| |||||||| || || ||||| || || |||||||| || ||||| |||||||| || ||||| || ||
gtaagtgaagaaggtttaaagaaacaaccttttgtttgttatgttgggattcctattaactttatcgtatgtgctctttcctgtgattgattggttgatttttttctagGTTTCGAAAAGCCTTCTGCTATTCAGCAAAGAGGAATTGTACCCTTTTGCAAGGGTCTTGATGTGATCCAGCAGGCACAGTCTGGTACTGGAAAAACCGC

upper sequence: GLYMA08G20300.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0002g01760.t01 (Vitis vinifera), 3'ss of exon 3
catgagggtattagtgatgcacttcaaaaagagtaagtgtttctcttgctttactttatcaaaaaaataatgtatgatatgttttattattgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCAAAGGACTGGATGTGATTCAACAGGCTCAGTCTGGAACAGGAAAGACAGC
    |       | | ||| ||| |       ||   |  || |  ||   ||| || ||  || |   |   |     |    |    || |||  |||||||||||| ||||||||| || || ||||| ||||||||||| |||||||| || || |||||||| |||||||| || |||||||| || || || ||
ttcaatacgcaaaattatgaactactgttgctgtcttttgttgttctggcctaccttctcctaacatgcacaaacctcttaccctgggtttctttcaaagGTTTTGAGAAGCCTTCTGCGATCCAACAAAGAGGAATTGTTCCATTCTGCAAGGGGCTCGATGTGATCCAACAGGCACAATCTGGAACTGGGAAAACTGC

upper sequence: GLYMA08G20300.2 (Glycine max), 3'ss of exon 3
lower sequence: PP1S31_150V6.5 (Physcomitrella patens), 3'ss of exon 3
catgagggtattagtgatgcacttcaaaaagagtaagtgtttctcttgctttactttatcaaaaaaataatgtatgatatgttttattattg--tttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCAAAGGACTGGATGTGATTCAACAGGCTCAGTCTGGAACAGGAAAGACAGC
  ||   || ||   | |||  |         |||  |   |  |  |    | || | |   |   |  ||    |      || |  |||   | |  ||||||||||| ||| |||||||| || ||  | ||||| ||||| |||  ||| || || ||||| |||||||| || ||||||||||| || ||||||||
-ttgcatgttttgtgggtgc-ttgtggtgttcgtagtttcctaccgagaaccaattgaaccgcactctgctgctctaatctcattctggttgacctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCAAGGGTCTTGATGTCATTCAACAAGCCCAGTCTGGAACTGGCAAGACAGC

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|37997471|gb|CF809060.1|CF809060
EST:     TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATG                         GTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
genomic: TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATGgtatgtactg ... tgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
EST: gi|6719017|gb|AW306664.1|AW306664
EST:     TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATG                         GTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
genomic: TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATGgtatgtactg ... tgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
EST: gi|9820437|gb|BE555947.1|BE555947
EST:     TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATG                         GTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
genomic: TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATGgtatgtactg ... tgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
EST: gi|6134879|gb|AW133272.1|AW133272
EST:     TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATG                         GTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
genomic: TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATGgtatgtactg ... tgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
EST: gi|193571344|gb|FK528193.1|FK528193
EST:     ATATATGCTTATG                         GTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
genomic: ATATATGCTTATGgtatgtactg ... tgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
EST: gi|37994639|gb|CF806304.1|CF806304
EST:     TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATG                         GTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
genomic: TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATGgtatgtactg ... tgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
EST: gi|16347160|gb|BI972755.1|BI972755
EST:     TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATG                         GTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
genomic: TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATGgtatgtactg ... tgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
EST: gi|7286082|gb|AW598569.1|AW598569
EST:     TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATG                         GTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
genomic: TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATGgtatgtactg ... tgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
EST: gi|21995036|gb|BQ786564.1|BQ786564
EST:     TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATG                         GTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
genomic: TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATGgtatgtactg ... tgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
EST: gi|9986909|gb|BE661017.1|BE661017
EST:     TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATG                         GTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA
genomic: TGATGCAATGGGATTGCAAGAGAATCTTCTGCGAGGCATATATGCTTATGgtatgtactg ... tgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctttactttatcaaaaaaataatgtatgatatgttttattattgtttttaagGTTTTGAGAGGCCTTCTGCTATACAGCAAAGGGGAATTGTTCCTTTCTGCAAAGGACTGGATGTGATTCAACAGGCTCAGTCTGGAACAGGAAAGACAGC
                                            ttgttttt  CT-rich tract
               aaaaaaataatgtatg  TA-rich tract