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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGGTGATTATTTTCGGTATCTTGCTGAGTTCAAGACTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgcttgtctgtttgatcttgtgttttagtactaaattagttcataagttatttatattgtacactataccgtcatttgattttcgctaatgttttaattatcag

Basic information

species Glycine max
transcript GLYMA02G12930.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G12930.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv01s0011g00620.t01 (Vitis vinifera), 5'ss of exon 3
GAAAGGTGATTATTTTCGGTATCTTGCTGAGTTCAAGACTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgcttgtctgtttgatcttgtgttttagtactaaattagttcataagt-tatttatattgtacactata---ccgtcatttgattttcgctaatgtt-ttaattatcag
   |||||| || |  |||||||| |||||||||||||||||||| ||||||||||||||  ||||||||||||| || || |||||||  |||| |    | ||    | | | ||     ||  |   |||  ||     ||||||| |   |   | ||   |  ||| ||||| | | ||    ||  || || | ||
---AGGTGACTACTACCGGTATCTGGCTGAGTTCAAGACTGACCAGGAAAGGAAAGAGGCCTCTGAGCAGTCACTGAAGGGCTACGAGG--CATGTTCACTTCTTgtgacatctcttaacaaacacatagagtcaatgttcgtatttatgtaacattttctaattcgatcacttgatataccctttctttgctatttgttag
















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|7795610|gb|AW781007.1|AW781007
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|18041343|gb|BM309637.1|BM309637
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|151412856|gb|EV282668.1|EV282668
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|207840744|gb|GD810937.1|GD810937
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACA
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACA
EST: gi|37994792|gb|CF806381.1|CF806381
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|10843368|gb|BF067173.1|BF067173
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|15813620|gb|BI785895.1|BI785895
EST:     CTGACCAAGAAAGGAAAGAAGCAGCTGAGCAGTCACTAAAAAGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACA
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACA
EST: gi|7232421|gb|AW567777.1|AW567777
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAGACACAGATCTTTCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|4306793|gb|AI443955.1|AI443955
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|192296241|gb|FG991567.1|FG991567
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|15814301|gb|BI786576.1|BI786576
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGAGACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|192318665|gb|FK006211.1|FK006211
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|16348185|gb|BI973780.1|BI973780
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|14011701|gb|BG726623.1|BG726623
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|18690824|gb|BM519672.1|BM519672
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|7284525|gb|AW597114.1|AW597114
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|31468373|gb|CD410401.1|CD410401
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|21887789|gb|BQ741002.1|BQ741002
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|7692312|gb|AW760421.1|AW760421
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|57574121|gb|CX547096.1|CX547096
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|208081589|gb|GD882047.1|GD882047
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACNCAGATCTTCCATCAACACA
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACA
EST: gi|192326726|gb|FK018883.1|FK018883
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|7924046|gb|AW830054.1|AW830054
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|16347707|gb|BI973302.1|BI973302
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|38193306|gb|CF922512.1|CF922512
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|192318664|gb|FK006210.1|FK006210
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAG                         GCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgctt ... taattatcagGCTGCTTCTGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAAGGTGATTATTTTCGGTATCTTGCTGAGTTCAAGACTGACCAAGAAAGGAAAGAGGCAGCTGAGCAGTCACTAAAAGGATACGAGgtacatgcttgtctgtttgatcttgtgttttagtactaaattagttcataagttatttatattgtacactataccgtcatttgattttcgctaatgttttaattatcag

- - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG