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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattaaagtttttttgttttcccctcttgaacatacatacttttgtacttgttaatttatttatttgtataaattgtacttttatttgtcagGTTATTCTTCTAGAATCACGAGAAAGACTTGGTGGCCGAATTCACACTGACTACTCATTTGGCTTTCCTGTTGACCTGGGTGCATCGTG

Basic information

species Glycine max
transcript GLYMA14G03610.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G03610.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os04g53195.1 (Oryza sativa), 3'ss of exon 2
-------------------------gtattaaagtttttttgttt---tcccctcttgaacatacatacttttgtacttgttaatttatttatttgtataaattgtacttttatttgt---cagGTTATTCTTCTAGAATCACGAGAAAGACTTGGTGGCCGAATTCACACTGACTACTCATTTGGCTTTCCTGTTGACCTGGGTGCATCGTG
                           |||  | |  | | | ||   |   | ||||||       | ||      |||| || || ||      |    ||| || | |  ||| |   |||||| ||||||||||||| || || ||  | |||||  ||||||||||||| ||||| ||||||||||||||||| ||||| ||||| ||
gtaatatgtgatgcagtttatggcctaattgtaatgatataggttcaatgatcccttgaa---gtgcatttcaaatgttgtgaaattcttccccactggttattctaatgtggtttctttccagGTTGTTCTTCTAGAATCTCGTGACAGGATAGGTGGTAGAATTCACACTGATTACTCTTTTGGCTTTCCTGTTGATCTGGGAGCATCCTG

upper sequence: GLYMA14G03610.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G396856_T02 (Zea mays), 3'ss of exon 3
----------gtattaaagtttttttgttttcccctcttgaacatacatacttttgtacttgttaa--------------tttatttatttgtataaattgtacttttatttgtcagGTTATTCTTCTAGAATCACGAGAAAGACTTGGTGGCCGAATTCACACTGACTACTCATTTGGCTTTCCTGTTGACCTGGGTGCATCGTG
          || |||   | || |  | ||    | |||   || ||  | | | || |||  ||              |||  | ||   | |   |||  ||  |   | ||||||||||||||| ||||| || || ||| |||||||| || |||||||||||||||| ||||| ||||| || ||  |||| ||||| ||
gtatttttcagtgttact-tcttgtcatgtttgtgtgttggtgatgcaatcatatttatttgagaaaaatggaaagatccttttgtgatgcatttcggttgctctgatgcatttcagGTTATTCTTCTGGAATCTCGTGATAGAATTGGTGGCAGAGTTCACACTGACTACTCTTTTGGGTTTCCAGTCGATTTGGGAGCATCTTG

upper sequence: GLYMA14G03610.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G000052_T01 (Zea mays), 3'ss of exon 3
-----------------------------gtattaaagtttttttgttttcccctcttg-aacatacatacttttgtacttgttaatttatttatttgtataaattgtacttttatttg-------tcagGTTATTCTTCTAGAATCACGAGAAAGACTTGGTGGCCGAATTCACACTGACTACTCATTTGGCTTTCCTGTTGACCTGGGTGCATCGTG
                             || |    |||  | |  | |  |  |||  ||| |  ||   ||||       | | |      |||||     || |   ||| | ||        ||||||||||| || ||||| || || ||  |||||||| || |||||||||||||||| ||||| ||||| || ||  |||| ||||| ||
gtgattttcggtgttattttttttgtcatgtttcggtgttggtgtaatgttacaacttacaacctgtatttatttggcgaaaatgagtagaccctttgtgatccttttcaatttgtgtgacacattccagGTTATTCTACTGGAATCCCGTGATAGGATTGGTGGCAGAGTTCACACTGACTACTCTTTTGGGTTTCCGGTCGATTTGGGAGCATCTTG

upper sequence: GLYMA14G03610.2 (Glycine max), 3'ss of exon 2
lower sequence: AT2G43020.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattaaagtttttttgttttcccctcttgaacatacatacttttgtacttgttaatt-tatttatttgtataaattgtacttttatttgtcagGTTATTCTTCTAGAATCACGAGAAAGACTTGGTGGCCGAATTCACACTGACTACTCATTTGGCTTTCCTGTTGACCTGGGTGCATCGTG
        |||| |    ||||   | ||  ||| | |||   |  ||  || |  |  ||| | ||| |     |     | ||  |  | |||||||  | || || || || || ||| ||||||| ||| |||||||||| ||||||||||| ||||||||||| || |||||||| ||
--------gtttgtgatgtttcatgttttataca-atatatcctgatagctgattttgatatctctttctcacggtgtggttcttggtgtttagGTTATGGTACTGGAGTCCCGTGACAGAATTGGTGGACGAGTTCACACTGATTACTCATTTGGTTTTCCTGTTGATCTTGGTGCATCATG

upper sequence: GLYMA14G03610.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv12s0028g01120.t01 (Vitis vinifera), 3'ss of exon 2
--gtattaaagtttttttgttttcccctcttgaacatacatacttttgtac---ttgttaatttatttatttgtataaat-tgtacttt-tatttgtcagGTTATTCTTCTAGAATCACGAGAAAGACTTGGTGGCCGAATTCACACTGACTACTCATTTGGCTTTCCTGTTGACCTGGGTGCATCGTG
  |   || |    | ||| | |   || ||    ||      |||||  |   ||  |  ||  | ||||  ||   ||    ||||| | ||| | ||||| ||||  | ||||| || || ||| ||||||| ||  |||| ||||| ||||||||||| ||||||||||||||||| ||||| ||
tagccatagataaatattgctctgttctgtttgctattttcgtttttgatcagatttctgtttgctatattcctaactatacacactttatcttttttagGTTGTTCTGTTGGAATCGCGTGATAGAATTGGTGGACGGGTTCATACTGATTACTCATTTGGTTTTCCTGTTGACCTGGGAGCATCATG

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|254349086|gb|GR860358.1|GR860358
EST:     GCATGGCTGGGATTGCTGCTGCTCGTGCTCTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTAGAATCACGAGAAAGACTTGGTGGCCGAATTCACACTGAC
genomic: GCATGGCTGGGATTGCTGCTGCTCGTGCTCTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGAGAAAGACTTGGTGGCCGAATTCACACTGAC
EST: gi|37996288|gb|CF807877.1|CF807877
EST:     GCATGGCTGGGATTGCTGCTGCTCGTGCTCTTCAAGATGCCTCATTTCAG                         GTTATTCTTCTAGAATCACGAGAAAGACTTGGTGGCCGAATTCACACTGAC
genomic: GCATGGCTGGGATTGCTGCTGCTCGTGCTCTTCAAGATGCCTCATTTCAGgtattaaagt ... tatttgtcagGTTATTCTTCTAGAATCACGAGAAAGACTTGGTGGCCGAATTCACACTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttttgtacttgttaatttatttatttgtataaattgtacttttatttgtcagGTTATTCTTCTAGAATCACGAGAAAGACTTGGTGGCCGAATTCACACTGACTACTCATTTGGCTTTCCTGTTGACCTGGGTGCATCGTG
            tgttaat  putative branch site (score: 3)
                                         cttttattt  putative PPT
           ttgttaatttatttat  TA-rich tract