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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACGTCCCGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaaccgagtaatatattgcatcttcctaggttattcttatatttagctttccaatgttaattattgacttcagtttctaaacttatggttttagt...

Basic information

species Glycine max
transcript GLYMA02G35500.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G35500.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os07g47580.1 (Oryza sativa), 5'ss of exon 6
GTACGTCCCGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagt-aaccgagtaatatattgcatcttcctaggttatt--cttatatttagctttccaatgttaattattgacttcagtttctaaacttatggttttagt
||  | || ||||||||||| ||||||||||||||  | |||||||| || ||||| ||||||| |||| ||      || |  |    ||    ||||   | | |||| ||||    ||| |   |     | |   ||| ||       |    ||| 
GTCAGACCTGTGGCTGAAGAAGAAATGTTCAAAGTTTTACGAACTGGCAAGAGAAAAAgtaagtgaacctaggtgccaatagtgtaaatctgtaatattagttgacatttggcttgt--atgctcggtgcattcatgtatttgtacttcctcgtagctag-
















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|192313831|gb|FK007647.1|FK007647
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|208078880|gb|GD874536.1|GD874536
EST:     GTTCAAAGTGGTCCGTACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: GTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|15203872|gb|BI426640.1|BI426640
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|7478670|gb|AW666357.1|AW666357
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCCTGGT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCC-TGGT
EST: gi|6071298|gb|AW100685.1|AW100685
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|17519530|gb|BM188572.1|BM188572
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|298194398|gb|HO041046.1|HO041046
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAGAAGCTACATTTGTTGGGCCT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCT
EST: gi|15203893|gb|BI426661.1|BI426661
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|31310190|gb|CD395393.1|CD395393
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|8285802|gb|BE023361.1|BE023361
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|120491259|gb|EH219426.1|EH219426
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|192328211|gb|FK020444.1|FK020444
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|31312274|gb|CD397477.1|CD397477
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|21995126|gb|BQ786654.1|BQ786654
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|192313774|gb|FK007646.1|FK007646
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|20811431|gb|BQ295909.1|BQ295909
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|7588724|gb|AW704513.1|AW704513
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|151402809|gb|EV272622.1|EV272622
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|16348558|gb|BI974153.1|BI974153
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
EST: gi|6668126|gb|AW279577.1|AW279577
EST:     CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGA                         CCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT
genomic: CGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaacc ... catttttcagCCAAGCAATGGAAGAGGATGGTTACAAAAGCTACATTTGTTGGGCCTGGTT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACGTCCCGTGGCTGAAGATGAAATGTTCAAAGTGGTCCGAACTGGTAAAAGAAAGAgtaagtaaccgagtaatatattgcatcttcctaggttattcttatatttagctttccaatgttaattattgacttcagtttctaaacttatggttttagt

- - - - - -  CTGAAG
- - - - - - - TGAAGA
- - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA