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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCAAATGGAGTTGTCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttattttccattattagattgctttttaactgtgctgaagggcttcgtttgatccatgtagccaacctcacctagtgggataagactttgttgg...

Basic information

species Glycine max
transcript GLYMA08G17810.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G17810.5 (Glycine max), 5'ss of exon 4
lower sequence: AT1G16470.1 (Arabidopsis thaliana), 5'ss of exon 4
CTGCAAATGGAGTTGTCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttattttccat-----tattag----attgctttttaactgtgct--gaagggcttcgtttgatcc----atgtagccaacctcacc--tagtgggataagactttgttgg------
|| | ||||||||||||||||| || || ||||| ||||| |||||  |||||||||||||||| || |||| ||  || |      |||| |    ||| |  | || |  ||||  |    ||||  || |||      || ||| |||| || |    | | |  |     ||||   |      
CTTCTAATGGAGTTGTCATTGCAACTGAAAAGAAGTTGCCTTCTATTCTGGTTGATGAAGCATCTgtaagttgataatcaacaagaatattcgtatcattaccatatagccatgctctgtgatgctttcttcgattgtgtaatttagtcaacatctctgacattagttttctcttttgcctgtttcag

upper sequence: GLYMA08G17810.5 (Glycine max), 5'ss of exon 4
lower sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 4
CTGCAAATGGAGTTGTCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagttt-----attttccatt---attagattgctttttaactgtgctgaa--gggcttcgtttgatccatgtagccaacctcacctagtgggataagactt-tgttgg-----------------
|| ||||||||||||||||||| || || |||||| | || |||||||||||||||||||| || || |||||     | | |  ||    ||||| |   |||    ||||||      | | | | ||   | |   |    |   |||   | |   |  | |||  ||||                   
CTTCAAATGGAGTTGTCATTGCAACTGAAAAGAAACTTCCTTCTATATTGGTTGATGAAGCGTCTgtaagtttgatcaactctttatagcaattagttctttttcattctgtgcctgctcgtgttactttcctttcggttgcatagtttcagtaactcctacgaaactaatgtttatctattgtctgtttcag
















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|12688055|gb|BG154391.1|BG154391
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|7690855|gb|AW758992.1|AW758992
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|27446035|gb|CA953158.1|CA953158
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|15815476|gb|BI787751.1|BI787751
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|19268728|gb|BM884984.1|BM884984
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|13311848|gb|BG405499.1|BG405499
EST:     GCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         G-CCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: GCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|4305924|gb|AI443831.1|AI443831
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|27425474|gb|CA936994.1|CA936994
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|37996790|gb|CF808379.1|CF808379
EST:     TCATTGTTTCCGACAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|14990436|gb|BI316109.1|BI316109
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|7691886|gb|AW760004.1|AW760004
EST:     TGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|15285795|gb|BI469686.1|BI469686
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGTTTAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|207767049|gb|GD737011.1|GD737011
EST:     TACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|12687912|gb|BG154308.1|BG154308
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|26058340|gb|CA801254.1|CA801254
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|298195959|gb|HO044350.1|HO044350
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|207730604|gb|GD707491.1|GD707491
EST:     AAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: AAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|15000807|gb|BI321621.1|BI321621
EST:     CATTGCTACCGAGAAGTATTTTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: CATTGCTACCGAGAAG-AAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|8283306|gb|BE020867.1|BE020867
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|26058444|gb|CA801358.1|CA801358
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|15815210|gb|BI787485.1|BI787485
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|13563115|gb|BG551335.1|BG551335
EST:     TCATTGCTACCGAGACGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|208056326|gb|GD853305.1|GD853305
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|298192268|gb|HO036350.1|HO036350
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|17023069|gb|BM094103.1|BM094103
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|6567102|gb|AW234729.1|AW234729
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|27424967|gb|CA936487.1|CA936487
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|24135847|gb|BU926357.1|BU926357
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
EST: gi|23062603|gb|BU578520.1|BU578520
EST:     TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCA                         GTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG
genomic: TCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttat ... ttgattgcagGTCCAGAAAATTCAGTTATTAACACCAAATATAGGTGTCGTATATAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGCAAATGGAGTTGTCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAGCATCAgtgagtttattttccattattagattgctttttaactgtgctgaagggcttcgtttgatccatgtagccaacctcacctagtgggataagactttgttgg

- - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC