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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagtcaatagtgataattaattaatttcaattctctgaatattgattctgtgcttcagctgaaaatgttgtgtttgtgtgaattgtttatagATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACTTTACATATGAAGTGGGTCTTGTGGAAAAGTTCCCTCCTGTTCCCTTGTT

Basic information

species Glycine max
transcript GLYMA10G39330.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G39330.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G14900.1 (Arabidopsis thaliana), 3'ss of exon 1
----------------------------------------------gtatagtcaatagtgataattaattaatttcaattctctgaatattgattctgtgcttcagctg-aaaatgttg-tgtttgtgtga--attgttt---atagATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACTTTACATATGAAGTGGGTCTTGTGGAAAAGTTCCCTCCTGTTCCCTTGTT
                                               |||| |    |   | || |  ||   ||   |  |  |||| |       ||   | |  || |||||| || | |||| ||    || | ||   | ||||||||||||||||||||| | ||  || || ||||||||||||||||| || || | |||||| ||||||||  |   ||||||||||||||| ||| |
gtaatctttcttctttacctttgattaccattagatgtttttagctatatattggggaagcacaagttgttgtcttttgtcatgggaatctgtgagtagtatctgaaatggaaaatgatggtttttgggttgttatggcttcacacagATATGATTGAAGAGTTGATAATCAGGGGACAACAGCTTGATGCGGTTCATTTCACTTTTGAAGTTGGTCTTGTACACTTGTTCCCTCCTGTTCCTTTGCT

upper sequence: GLYMA10G39330.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G22440.1 (Arabidopsis thaliana), 3'ss of exon 1
------gtatagtcaatagtgataattaattaatttcaattctctgaatattgattctgtgcttcagctgaaaatgttgtgtttgtgtgaattgtttatagATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACTTTACATATGAAGTGGGTCTTGTGGAAAAGTTCCCTCCTGTTCCCTTGTT
      || |  |  |     | | |   | || || ||  || |   | |  ||   ||  |  |       |  ||     |   ||   |||  | ||| ||||||||||| || |||||||  || || ||||||||||| ||||| ||||| |||||||| || |||||||| ||||||||||||||||| ||| |
tacaaggtgttattgaccac-agactgtgtgaagttgaagcctttttctctgtatctcgttttataatatctgaacttacaagttgttgcgctgtccacagACATGATTGAAGAATTAATCAGCAGGGGACAACAGCTTGATGCTGTTCATTTTACTTATGAAGTTGGGCTTGTGGATAAGTTCCCTCCTGTTCCTTTGCT

upper sequence: GLYMA10G39330.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv05s0020g03470.t01 (Vitis vinifera), 3'ss of exon 1
-gtatagtcaatagtgataattaattaatttcaattctctgaatattgattctgtgcttcagctgaaaatgttgtgtttgtgtgaatt-----gtttatagATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACTTTACATATGAAGTGGGTCTTGTGGAAAAGTTCCCTCCTGTTCCCTTGTT
  | |     || |          ||| | | |||| |  ||    |     |||  |  ||||||   | |  || ||||   | ||      | |  ||||||||||||||| ||  |||  |  || || ||  ||||||| || ||||||||||| ||||| || |||||||| ||||| || ||||| |||||| |
tttctgaggtatggcatggggcttttactgtgaattattggacatgttccagtgtagtatagctgagttt-taatgcttgtaaaacttttgtcatatgcagATATGATTGAAGAATTAGTCAATAGGGGACAACAAGTTGATGCTGTGCACTTTACATACGAAGTTGGGCTTGTGGACAAGTTTCCCCCTGTACCCTTGCT

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|8669755|gb|BE190862.1|BE190862
EST:     ACAGATGCCGAAGCTCGCGCTTTCGGTTGGTCTCGCTCAGCAAATGCCTG                         ATATGATTGAAGAAGT-GATCAGCAAATGGCAGCAGCTTGAT
genomic: ACAGATGCCGAAGCTCGCGCTTTCGCTTGGTCTCGCTCAGCAAATGCCTGgtatagtcaa ... ttgtttatagATATGATTGAAGA-GTTGATCAGCAAAGGGCAGCAGCTTGAT
EST: gi|15204068|gb|BI426836.1|BI426836
EST:     ACAGATGCCGAAGCTCGCGCTTTCGCTTGGTCTCGCTCAGCAAATGCCTG                         ATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGNTCACT
genomic: ACAGATGCCGAAGCTCGCGCTTTCGCTTGGTCTCGCTCAGCAAATGCCTGgtatagtcaa ... ttgtttatagATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACT
EST: gi|15201230|gb|BI424763.1|BI424763
EST:     ACAGATGCCGAAGCTCGCGCTTTCGCTTGGTCTCGCTCAGCAAATGCCTG                         ATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACT
genomic: ACAGATGCCGAAGCTCGCGCTTTCGCTTGGTCTCGCTCAGCAAATGCCTGgtatagtcaa ... ttgtttatagATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACT
EST: gi|193343737|gb|FK311497.1|FK311497
EST:     ACAGATGCCGAAGCTCGCGCTTTCGCTTGGTCTCGCTCAGCAAATGCCTG                         ATATGATTGAAGAGTTGATCAG
genomic: ACAGATGCCGAAGCTCGCGCTTTCGCTTGGTCTCGCTCAGCAAATGCCTGgtatagtcaa ... ttgtttatagATATGATTGAAGAGTTGATCAG
EST: gi|208191461|gb|GD987881.1|GD987881
EST:     ACAGATGCCGAAGCTCGCGCTTTCGCTTGGTCTCGCTCAGCAAATGCCTG                         ATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACT
genomic: ACAGATGCCGAAGCTCGCGCTTTCGCTTGGTCTCGCTCAGCAAATGCCTGgtatagtcaa ... ttgtttatagATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACT
EST: gi|151400897|gb|EV270711.1|EV270711
EST:     ACAGATGCCGAAGCTCGCGCTTTCGCTTGGTCTCGCTCAGCAAATGCCTG                         ATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACT
genomic: ACAGATGCCGAAGCTCGCGCTTTCGCTTGGTCTCGCTCAGCAAATGCCTGgtatagtcaa ... ttgtttatagATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatattgattctgtgcttcagctgaaaatgttgtgtttgtgtgaattgtttatagATATGATTGAAGAGTTGATCAGCAAAGGGCAGCAGCTTGATGCGGTTCACTTTACATATGAAGTGGGTCTTGTGGAAAAGTTCCCTCCTGTTCCCTTGTT
  tattgat  putative branch site (score: 3)
                                           aattgtttata  TA-rich tract