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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgtgaacgtgtctcatgttttgttggcttctatactttgttttttggacttaactgataagtattcagtttacttatggaatgggtaatcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA

Basic information

species Glycine max
transcript GLYMA05G32030.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32030.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G013750_T04 (Zea mays), 3'ss of exon 4
gtcagtgtgaacgtgtctcatgttttgttggcttctatactttgttttttggactt---aactgataagtattcagtttacttatggaatgggtaatcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA
 | |     ||  |    |  || ||  |   ||| ||| |||  | ||   |||    || |  | ||    ||    |       |   | ||   ||| ||||| ||||| |||||  ||||||| ||||| ||||||||||| |||||||| || || 
-tgaaccctaa-atactacg-gtattcataaattccatagttttatcttgaaactccaaaaatactgagctaccaaaacaggccctaacaagcta--tttatcagGTCGAAACATTTGGCTCCATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG

upper sequence: GLYMA05G32030.2 (Glycine max), 3'ss of exon 4
lower sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
gtcagtgtgaacgtgtctcatgtt--ttgttggcttctatactttgttttttggacttaactgataagtattcagtttacttatggaatgggtaatcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA
      || | | | |||     |  ||     |||   |        ||||  | |||  | |||  |  ||| | | | |      ||  ||    | | ||||||| || |||||||| ||||| || |||||||||||||| |||||||| ||||||
------gtaagcttttcttcctctactttccaactttcgtggaaatcgttttttatttattttatagtttatcaatgtgcattgattgtgattatgaattatagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA

upper sequence: GLYMA05G32030.2 (Glycine max), 3'ss of exon 4
lower sequence: AT5G09900.2 (Arabidopsis thaliana), 3'ss of exon 4
gtcagtgtgaacgtgtctcatgttttgttggcttctatactttgttttttggacttaactgataagtattcagtttacttatggaatgggtaatcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA
                 | |  ||||||    ||   || |   | |  ||||  |          | || |        ||   ||   ||||  ||||||||||| || |||||||| ||||| || ||||||||||||||||| || || ||||||
----------------gtaagattttgtgcatttggctattaaatctcctggaaattttcttcccttgttaacccctgcaatttgataaataat--taacagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAA

upper sequence: GLYMA05G32030.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 3'ss of exon 4
----------------gtcagtgtgaacgtgtctcatgttttgttggcttctat--actttgttttttggacttaactgataagtattcagtttacttatggaatgggtaatcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA
                || |   ||  | | |    | |  | || |     |   ||   ||| ||||   |||  |  ||      || |||  ||   |  |   |||||   |||||||||||| |||||||| ||||| || ||||| ||||||||||||||||| ||||||
gtcagttaaaaatagagttaccatgggctttttatttttggtattagaaaacactaaccccgttgtttgttttta--tattacacgagcactttggttgatgt-tacttaatc---acagGTGGAAACATTTGGTGCAATGGCAAAAACTGAAAAAATTGCATTCATTCTTGAACAA

upper sequence: GLYMA05G32030.2 (Glycine max), 3'ss of exon 4
lower sequence: PP1S257_89V6.2 (Physcomitrella patens), 3'ss of exon 4
----------------------------------gtcagtgtg-aacgtgt----ctcatgttttgttggc--ttcta----tactttgttttttggacttaactgataagtattcagtttacttatggaatgggtaatc--ttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA
                                    | ||  | ||| |||     ||||| | ||   |   || |     ||||    |     |  |    |  | | ||||           | | || ||   |   |   |||||||||||||||||||||||||| || |||||||| ||||| |||||||| ||||||
gtatgtgatattgcttcgtgctgttgatcaattcaacggttagtaacatgtaatgttcatggtgtggaagacattttggtgctactagagtgcacagggtggtgtattgaatattggagccctgattcgtatcggcgtttggtcttcagGTGGAAACTTTTGGTGCCATGGCAAAAACTGAGAAGATTGCTTTCATTCTTGAACAA

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


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggacttaactgataagtattcagtttacttatggaatgggtaatcttaacagGTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAA
         aactgat  putative branch site (score: 3)
              ataagtatt  TA-rich tract