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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagattttaatattttctttcttaaagattcttagatgatatggtcatcatcattttcattttggtaccataacctataaaatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGCGGTTGTTCCGTGTATATGCTCACATATACCATTCTCACTTTCAGAAAAT

Basic information

species Glycine max
transcript GLYMA01G35130.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G35130.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G098819_T02 (Zea mays), 3'ss of exon 4
-------------gtaaagattt-taatattttct----ttcttaaagattcttag---atgatatggtc-atcatcat-tttcattttggtaccataacctataaaatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGCGGTTGTTCCGTGTATATGCTCACATATACCATTCTCACTTTCAGAAAAT
              |   ||||| |     | |||    ||||| |  |  | | |    ||||    || | |||  | | | |||  | |    |  ||  |    |  |  |||  ||||||| || || ||||| |||||||| |||||||| ||||||||||| ||||| ||||| ||||| ||||||||||| || || || ||||| ||
gtatgttgcttttttgtggatttatggagctctctcggtttcttgagaacacctggtatctgatgcaatcgagcatgttatctgattcggattttgtttcccct----ttgtcaagGCACACCATTCCCACCAAACTTCAAGGAAGTAGTGAAGACGATATTCAAGCGCTTGTTTCGTGTTTATGCCCACATATACCACTCGCATTTCCAGAAGAT

upper sequence: GLYMA01G35130.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G055125_T01 (Zea mays), 3'ss of exon 1
gtaaagattttaatattttctttcttaaagattcttagatgatatg----gtcatcatcattttcattttggtaccataacctataaaatc-atgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGCGGTTGTTCCGTGTATATGCTCACATATACCATTCTCACTTTCAGAAAAT
|||      ||  |||| |   | ||  |||    ||  ||| ||     | ||||     | | || |   |   ||  | | |    ||  |  |||  | |||||||| || ||||| |||||||| || ||||||||||||||||| ||||| || || ||||| || |  ||||| || || || ||||| ||
gtatgttgctttttattatggat-ttgtagagctctacctgacatcgaatgccatctagcgtgttatctaatttggatttcgtttcccctctgtcaagGCACGCCATTTCCACCGAACTTCAAGGAAGTAGTAAAGACAATATTCAAGCGCTTGTTTCGGGTCTATGCCCATACTTACCACTCCCATTTCCAGAAGAT

upper sequence: GLYMA01G35130.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G19045.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaaagattttaatattttctttcttaaagat-tcttagatgat-atggtcatcatcattttcattttggtaccataacctataaaatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGCGGTTGTTCCGTGTATATGCTCACATATACCATTCTCACTTTCAGAAAAT
          ||| ||   ||| ||     || |||| |||||| ||||  |  |  |  ||  | |   | ||||      |||| ||    |||| || | |||||||| ||||| |||||||| ||||||||||| || || ||  | ||||| || || || ||||||||||| ||||| || ||||||||
---------gtaaaataaccttactctggcatatctttgatgattatggataaaaagacattggtctcaat-ccatgg----taaattctgacagGTGCAGCTTTTCCTCCAAACTTCAAGGAAGTGGTGAAGACAATCTTTAAACGACTATTCCGAGTTTACGCACACATATACCACTCTCATTTCCAGAAAAT

upper sequence: GLYMA01G35130.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0043g00130.t01 (Vitis vinifera), 3'ss of exon 5
gtaaagattttaatattttc--tttcttaaagattcttaga-tgatatggtcatcatcattttcattttggtaccataacctataa---------aatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGCGGTTGTTCCGTGTATATGCTCACATATACCATTCTCACTTTCAGAAAAT
     | | ||| |||||||  |  ||  | | |    ||  || |||    | | |    |||| |||  | | |||    ||           |||  ||||||| |||| |||||||||||||||| ||||||||||||||| |||||||| ||  | ||||| |||||||| ||||| || || |||||||||||||||||
-----gttgttattattttcaatgcctggagggtgagcaggctggtatctgtagctttcccttcactttatttctatacttcatcggctacttttaattttgtagGTGCACCTTTTCCTCCCAACTTTAGGGAAGTTGTGAAGACGATATTCAAACGTCTATTCCGGGTATATGCCCACATTTATCACTCTCACTTTCAGAAAAT

upper sequence: GLYMA01G35130.2 (Glycine max), 3'ss of exon 5
lower sequence: PP1S99_129V6.1 (Physcomitrella patens), 3'ss of exon 5
--gtaaagattttaatattttctttcttaaagattcttagat-gatatggtcatcatcattttcattttggtaccataacctataaaatca-----tgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGCGGTTGTTCCGTGTATATGCTCACATATACCATTCTCACTTTCAGAAAAT
   |  || |    | |  || |   |  |  ||    | || ||| |   ||| |  ||| |  ||||| ||  ||   |      ||       || |||  | || ||||||   || || | ||||||||| ||||| || |||||| | |||||||| || ||||| || |||||||| |||||||||||||| ||
taatggagctcccgagagcttgtaaatctagaatctcaaaattgatctaagcatgaggattattcttttg-taatatgttccgcttgatttggcactgcagGGGCTCCGTTTCCTGTAAATTTCAGGGAAGTTGTAAAGACTATTTTCAAGAGATTGTTCCGGGTTTATGCACATATATACCACTCTCACTTTCAGAAGAT

upper sequence: GLYMA01G35130.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ17641 (Selaginella moellendorffii), 3'ss of exon 5
gtaaagattttaatattttctttcttaaagattcttagatgatatggtcatcatcattttcattttggtaccataacctataaaatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGCGGTTGTTCCGTGTATATGCTCACATATACCATTCTCACTTTCAGAAAAT
                           | |  | || | ||||  ||  |     | |  ||| |    ||| |  | | |    |  || |||  |||| |||||||||||||| ||||| ||||| ||||| || |||||  | || ||||| ||||| || ||||||||||| || || || ||||| ||
-------------------------gtacgtctgtttggtgattgggaga----aagtggcatctaaaaaccttgtcttct---cttctgcagGCGCACCGTTTCCTCCCAACTTCAAGGAGGTTGTAAAGACCATTTTCAAAAGATTATTCCGGGTATACGCCCACATATACCACTCGCATTTCCAGAAGAT

upper sequence: GLYMA01G35130.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ29107 (Selaginella moellendorffii), 3'ss of exon 5
gtaaagattttaatattttctttcttaaagattcttagatgatatggtcatcatcattttcattttggtaccataacctataaaatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGCGGTTGTTCCGTGTATATGCTCACATATACCATTCTCACTTTCAGAAAAT
                           | |  | || | ||||  ||  |     | |  ||| |    ||  |  | |||    |  || |||  |||| |||||||||||||| ||||| ||||| ||||| || |||||  | || ||||| ||||| || ||||||||||| || || || ||||| ||
-------------------------gtacgtctgtttggtgattgggaga----aagtggcatctaaagact-tgtcttat---cttctgcagGCGCACCGTTTCCTCCCAACTTCAAGGAGGTTGTAAAGACCATTTTCAAAAGATTATTCCGGGTATACGCCCACATATACCACTCGCATTTCCAGAAGAT

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|9902278|gb|BE611246.1|BE611246
EST:     GCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTG                         GTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGC
genomic: GCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTGgtaaagattt ... aatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGC
EST: gi|207829289|gb|GD798937.1|GD798937
EST:     CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTG                         GTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGC
genomic: CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTGgtaaagattt ... aatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGC
EST: gi|22930735|gb|BU547874.1|BU547874
EST:     CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTG                         GTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGC
genomic: CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTGgtaaagattt ... aatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGC
EST: gi|11273820|gb|BF324212.1|BF324212
EST:     CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTG                         GTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGC
genomic: CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTGgtaaagattt ... aatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGC
EST: gi|207792005|gb|GD766011.1|GD766011
EST:     CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTG                         GTTCACCATTTCCTCCCAACTTTAAGGAAGTTG
genomic: CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTGgtaaagattt ... aatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTG
EST: gi|208307480|gb|GE107102.1|GE107102
EST:     CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTG                         GTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGC
genomic: CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTGgtaaagattt ... aatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGC
EST: gi|208182457|gb|GD980358.1|GD980358
EST:     CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTG                         GTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAA
genomic: CTGGATTGAAGCACAGCTTGATGATGAATCCATATTCCCACAGAAGCTTGgtaaagattt ... aatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgatatggtcatcatcattttcattttggtaccataacctataaaatcatgtagGTTCACCATTTCCTCCCAACTTTAAGGAAGTTGTGAAGACAATATTCAAGCGGTTGTTCCGTGTATATGCTCACATATACCATTCTCACTTTCAGAAAAT
                                ccataac  putative branch site (score: 3)
              atcattttcatttt  TA-rich tract