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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atagtttggattaactaaaggatcactcaattgctcatcctatttttttgttctttgaataattaatgttgttaaccctttctaacgaagtgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAGACTTGATTGTGGGATCATGCCTACAG

Basic information

species Glycine max
transcript GLYMA10G34370.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G34370.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g01750.2 (Oryza sativa), 3'ss of exon 4
atagtttggattaactaa-aggatcactcaattgctcatcctatttttttgttctttgaataattaatgttgttaac-cctttctaacgaagtgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAGACTTGATTGTGGGATCATGCCTACAG
    | ||||    ||   |  ||     ||    | |    |||  | | |    |  || | |  ||   | |   ||||| |  | || |  ||   ||| ||||| ||||| |||||  | ||||||||||| |||||||| || ||||||||||| ||||| || ||| |||||
--tttatggacaggcttgtactattcactaagcttttactggattactgtctatcattgatcactcctgagatcatttcctttttttctaaatcatttctagTGTTGACGTATAGACATGAGCTTGGAATGAACTACAATTTCATACGCCCAGACTTGATCGTGGGCTCCTGCTTACAG

upper sequence: GLYMA10G34370.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G052546_T01 (Zea mays), 3'ss of exon 4
-atagtttggattaactaaaggatcactcaattgctcatcctatttttttgttct-ttgaataattaatgttgttaaccctttctaacgaagtgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAGACTTGATTGTGGGATCATGCCTACAG
  |  ||   ||  | |    | | | |   ||   | |    |   |||| ||| || | | ||      |||    | ||||   | | ||  || | ||  ||||| ||||| |||||| | || |||||||| |||||||| || |||||||||||||| ||||| ||| |||||
tgtgcttgccatctaatttttg-tgattgcgttatgcttttagtaagtttggtctattaacttatctgatatgtgtttcttttccccccatgttatt-atagCGTTGACATATAGACATGAACTCGGGATGAACTACAATTTCATACGCCCAGACTTGATTGTAGGATCCTGCTTACAG

upper sequence: GLYMA10G34370.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0250g00020.t01 (Vitis vinifera), 3'ss of exon 4
atagtttggattaactaaaggatcactcaattgctcatcctatttttttgttctttgaata-----attaatgttgttaaccctttc-taacgaagtgctt-cacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAGACTTGATTGTGGGATCATGCCTACAG
          ||||    |       | ||  | |     | || | ||| | | ||   |     ||   | | | ||||| |||| |    | || ||   ||||| |||||||||||||||||  |||||||||| || || ||||| |||||||||||||||||||| || |||||||||
-------aacttaatgggaatgctctttaaaagtttccttttttgtcttgctttgtgttcatgcatatggttttagctaaccatttcattcttatgttctgatacagTATTGACTTATAGGCATGAGCTAGGAATGAATTACAACTTCATTCGTCCAGACTTGATTGTGGGGTCTTGCCTACAG

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|120532166|gb|EH260299.1|EH260299
EST:     AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTG                         TTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
genomic: AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTGgtaatctttt ... tgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
EST: gi|192332512|gb|FK024273.1|FK024273
EST:     AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTG                         TTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
genomic: AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTGgtaatctttt ... tgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
EST: gi|17022153|gb|BM093187.1|BM093187
EST:     AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTG                         TTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
genomic: AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTGgtaatctttt ... tgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
EST: gi|26047793|gb|CA784466.1|CA784466
EST:     AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTG                         TTTTGACTTATAGGCAT
genomic: AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTGgtaatctttt ... tgcttcacagTTTTGACTTATAGGCAT
EST: gi|193463792|gb|FK427016.1|FK427016
EST:     TGACAGAAGCCATGGGNGCTG                         TTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
genomic: TGACAGAAGCCATGGGTGCTGgtaatctttt ... tgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
EST: gi|213617950|gb|DB967312.1|DB967312
EST:     AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATNGGTGCTG                         TTTTGACTTATAGGCA
genomic: AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTGgtaatctttt ... tgcttcacagTTTTGACTTATAGGCA
EST: gi|10845400|gb|BF068537.1|BF068537
EST:     AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTG                         TTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
genomic: AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTGgtaatctttt ... tgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
EST: gi|24205361|gb|BU964614.1|BU964614
EST:     AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTG                         TTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
genomic: AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTGgtaatctttt ... tgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
EST: gi|209709966|gb|BW681009.1|BW681009
EST:     AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTG                         TTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
genomic: AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTGgtaatctttt ... tgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
EST: gi|6916528|gb|AW398058.1|AW398058
EST:     TCATAGCATGACAGAAGCCATGGGTGCTG                         TTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
genomic: TCATAACATGACAGAAGCCATGGGTGCTGgtaatctttt ... tgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
EST: gi|7589574|gb|AW705345.1|AW705345
EST:     AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTG                         TTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG
genomic: AGAAAAGTCTGAGACATATAGTCATAACATGACAGAAGCCATGGGTGCTGgtaatctttt ... tgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgttctttgaataattaatgttgttaaccctttctaacgaagtgcttcacagTTTTGACTTATAGGCATGAATTAGGAATGAACTATAATTTCATCCGTCCAGACTTGATTGTGGGATCATGCCTACAG
                                  ttctaac  putative branch site (score: 1)
        tttgaataattaatgt  TA-rich tract