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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgaccacattgccttgtttgactctaaattttgatacctcgcgatgatgacttttcttgtcccttgattttattttttaacaaacttggtgtgatcattgcagGGTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT

Basic information

species Glycine max
transcript GLYMA02G47460.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os08g25734.2 (Oryza sativa), 3'ss of exon 2
gtaatgaccacattgccttgtttgactctaaattttgatacctcgcgatgatgacttttcttgtcccttgattttattttttaacaaacttggtgtgatcattgcagGGTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
      | ||| ||| | | |  |    | | |   |||  || | | |  |    |  |        | ||   | |  | |      ||  | |  | |   |||||||||||||||||||| || ||||| || ||||| ||||| ||||| |||||| |||| ||  |  |||||||||| || ||  | || || ||||| |
-----caacac-ttgtcgtttcagttagttactgaagatggct-gtgtttgtaggatcccaatctatcttatacaagtactgattttgttttatattctgacctcagGGTACTGCAGATGCTGTAAGACAGTACTTATGGCTATTTGAGGAGCATAATGTTATGGAGTTTCTAATTCTGGCTGGAGATCACCTTTACCGCATGGACT

upper sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 2
-----gtaatgaccacat-tgccttgtttgactctaaattttgatacctcgcgatgatgacttttcttgtcccttgattttattttttaacaaacttggtgtgatcattgcagGGTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
     |  || | || ||      |  |  ||   || ||||| || | | |     |   ||   |  |   |||||||| |||| ||               |  |  |||||||||||||||||||| |||||||| |||||| | ||||| ||||| |||||  |||||||  |  |||| ||||| || ||  |||| || ||||| |
atcatgccataagcaaatgcatgctactctacatgaagttttgctagcccacttcactagtttacgtcatgtattgattttcttttatatt-------------ttttctcagGGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAATGTGATGGAATTTCTAATTCTTGCTGGCGATCACCTGTACCGGATGGACT

upper sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 3'ss of exon 2
gtaatgaccacattgccttgtttgactctaaattttgatacctcgcgatgatgacttttcttgtcccttgattttattttttaacaaacttggtgtgatcatt-gcagGGTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
          ||||| || |        |    ||      ||     | | |  ||  |||||    ||  |   |||   |  ||| ||||| |    |||  ||||| || || |||||||||||||||||||| ||||| ||||| || ||||||||| | |||||| | ||||| ||||| ||||||||||||||||||||||
------caggcattgtctagaaaattgtttcggttaatcctctatttgtaaagttttcccttgtttgctgggt--gtttcacatgaaatttggtttatggatttacagGGAACAGCTGATGCTGTCAGGCAGTATTTATGGCTGTTTGAGGAACACAATGTTCTTGAATTCCTTGTTCTTGCTGGGGACCATTTGTATCGAATGGATT

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|120533162|gb|EH261295.1|EH261295
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GGTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgacca ... atcattgcagGGTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
EST: gi|151410342|gb|EV280157.1|EV280157
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GGTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgacca ... atcattgcagGGTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
EST: gi|120530332|gb|EH258465.1|EH258465
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GTTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgacca ... atcattgcagGGTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacttttcttgtcccttgattttattttttaacaaacttggtgtgatcattgcagGGTACTGCAGATGCTGTCAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
                          ttttaac  putative branch site (score: 2)
               ttgattttatttttta  TA-rich tract