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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTGGAAATTGAGAGAGCTAGATTGATCAAGAAACTTGCAAAGATTAAGGAAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtgaacgtgtctcatgttttgttggcttctatactttgttttttggacttaactgataagtattcagtttacttatggaatgggtaatcttaacag

Basic information

species Glycine max
transcript GLYMA05G32030.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32030.2 (Glycine max), 5'ss of exon 4
lower sequence: AT5G64760.2 (Arabidopsis thaliana), 5'ss of exon 4
CGTGGAAATTGAGAGAGCTAGATTGATCAAGAAACTTGCAAAGATTAAGGAAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtgaacgtgtctcatgttttgttggcttc-tatactttgttttttggacttaactgataagtattcagtttacttatggaatgggtaatcttaacag
 || ||||| ||||||||| | |||| |||||  ||||| ||||||||||||||||||||  | || ||||||||||| ||| | ||||||||| |||| || ||  |       ||   |  |||      ||| |  |  | |||||||  | |||  | |||  |  ||| | | | |      ||  ||    | | ||
TGTCGAAATCGAGAGAGCTCGTTTGACCAAGATGCTTGCTAAGATTAAGGAAGAACAAGGTTTGATTGCTGAAGCTGCGGATCTCATGCAAGAAGTTGCTgtaagctt---ttcttcctctactttccaactttcgtggaaatcgtttttt--atttattttatagtttatcaatgtgcattgattgtgattatgaattatag

upper sequence: GLYMA05G32030.2 (Glycine max), 5'ss of exon 4
lower sequence: AT5G09900.2 (Arabidopsis thaliana), 5'ss of exon 4
CGTGGAAATTGAGAGAGCTAGATTGATCAAGAAACTTGCAAAGATTAAGGAAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtgaacgtgtctcatgttttgttggcttctatactttgttttttggacttaactgataagtattcagtttacttatggaatgggtaatcttaacag
 || ||||| ||||| ||  |  | | |||||||||||| ||||||||||||||||| || |  |||||||||||||| ||| | ||||||||| |||| || ||  |    |  | |     ||   |  | |  | | ||| ||   | |      |    || |    |  | | | |  |                  
TGTTGAAATCGAGAGGGCACGTCTCACCAAGAAACTTGCTAAGATTAAGGAAGAACAGGGTCAGATAGCTGAAGCTGCAGATCTTATGCAAGAAGTTGCTgtaagattttgtgcatttggctattaaatctcctggaaattttcttcccttgttaacccctgcaatttgataaataattaacag------------------

upper sequence: GLYMA05G32030.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 4
CGTGGAAATTGAGAGAGCTAGATTGATCAAGAAACTTGCAAAGATTAAGGAAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtgaacgtgtctcatgttttgttggcttctatactttgttttttggacttaactgataagtattcagtttacttatggaatgggtaatcttaacag----------------
 || ||||| ||||| ||| |  ||||||||||||| ||||| || |||||||| ||||||| ||||||||| || ||||||||||||||||||||||||||||||   ||   |  | |       | ||||| |    |||| | || | |   |        ||  |  ||||   |||   | | | | | |                      
TGTTGAAATAGAGAGGGCTCGGCTGATCAAGAAACTAGCAAAAATAAAGGAAGAGCAAGGGCATATAGCTGAGGCAGCTGATTTGATGCAAGAAATTGCGgtcagttaaaaatagagttac----catgggctttttatttttggtattagaaaacactaaccccgttgtttgtttttatattacacgagcactttggttgatgttacttaatcacag

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|27426310|gb|CA937830.1|CA937830
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|37996134|gb|CF807723.1|CF807723
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|5342415|gb|AI794699.1|AI794699
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|120496298|gb|EH224465.1|EH224465
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|19271260|gb|BM887516.1|BM887516
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|18039945|gb|BM308239.1|BM308239
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|24206051|gb|BU965304.1|BU965304
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|26047818|gb|CA784480.1|CA784480
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|37997022|gb|CF808611.1|CF808611
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|17519815|gb|BM188857.1|BM188857
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|7925406|gb|AW831371.1|AW831371
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|308098502|gb|HO760243.1|HO760243
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|151401327|gb|EV271141.1|EV271141
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|22541281|gb|BU091124.1|BU091124
EST:     CAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: CAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|23731285|gb|BU763760.1|BU763760
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GGGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|7795120|gb|AW780517.1|AW780517
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|192295223|gb|FG986942.1|FG986942
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|17022950|gb|BM093984.1|BM093984
EST:     GCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: GCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|192309222|gb|FG999449.1|FG999449
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
EST: gi|192299616|gb|FG989998.1|FG989998
EST:     AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGTAAGAAATTGCG                         GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC
genomic: AAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtga ... atcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTGGAAATTGAGAGAGCTAGATTGATCAAGAAACTTGCAAAGATTAAGGAAGAACAAGGGCTTATAGCTGAAGCTGCTGATTTGATGCAAGAAATTGCGgtcagtgtgaacgtgtctcatgttttgttggcttctatactttgttttttggacttaactgataagtattcagtttacttatggaatgggtaatcttaacag

- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA