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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctctctcgcggttcccccaaaattggggctattttttattctatttttcaaatgttcattctcgagtgtcactccgtcactcacattcctccgccaaacaaaatttcctatgtttgatttccatcattttaccgattgtttggaactgttatttttcagGGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCTATTTGGATCTGTTCACGGACTTCATATCCGTTTACAACACCTTCATGAA

Basic information

species Glycine max
transcript GLYMA08G12570.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G12570.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G29330.1 (Arabidopsis thaliana), 3'ss of exon 1
gtctctctctcgcggttcccccaaaattggggctattttttattctatttttcaaatgttcattctcgagtgtcactcc-gtcactcacattcctccgccaaacaaaatttcctatgtttgatttccatcatt-ttaccgattgtttggaactgttatttttcagGGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCTATTTGGATCTGTTCACGGACTTCATATCCGTTTACAACACCTTCATGAA
                                                        |   |    | ||   |   |   |   ||||   |  ||    | |            |||     | | | |||| || | | |   ||     | || ||    ||| || |||| ||||||||||||||| || ||| |||||||| || | || || ||||||||||| ||||| |   ||||  | ||||||| | |||||||
------------------------------------------------------gctacacggaatggaaaatgcttgtagatgctcatgattttctcatagat-----------tgtgcagctcctaacattgttgctgttgacttttggattttgttggctagGAATCTCTCTCAAGACTCAAGAGCTCTATGCGCTTGTGTTCTTGACTCGGTACTTGGATCTGTTTACGGATTATGTATCTCTGTACAACAGCATCATGAA

upper sequence: GLYMA08G12570.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv10s0003g01700.t01 (Vitis vinifera), 3'ss of exon 1
gtctctctctcgcggttcccccaaaattggggctattttttattctatttttcaaatgttcattctcgagtgtcactccgtcactcacattcctccgccaaacaaaatttcctatgtttgatttccatcattttaccga--ttgtttggaactgttatttt----tcagGGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCTATTTGGATCTGTTCACGGACTTCATATCCGTTTACAACACCTTCATGAA
                                                                  |      ||    |    | |   |   ||| | |   |   || ||| | ||  |||  |       || ||  | |||||  | | |    |     | ||||||||| | ||||||||| ||||| |||||| |||||||  || | || |||||||||||||||||||||||||| || || || |||||  | |||||
------------------------------------------------------------------cagcaaccaaagggagcattagggtttcccgtcgagtca---tttctagggtttctttgaagtgaaaaactgagttcgtttgacattttctcctccgagttagGGATTTCGCTCAAGACTCAGGAGCTCTACGCGCTTGTGTTTCTGACTCGGTATTTGGATCTGTTCACGGACTTCATCTCAGTCTATAACACTGTGATGAA
















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|192296942|gb|FG990273.1|FG990273
EST:     CAGCATTCTCGTCCTCCTCCTCAAAATCTACGCCACCAAATCATGTTCAG                         GGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCT
genomic: CAGCATTCTCGTCCTCCTCCTCAAAATCTACGCCACCAAATCATGTTCAGgtctctctct ... tatttttcagGGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCT
EST: gi|254319449|gb|GR830700.1|GR830700
EST:     CAGCATTCTCGTCCTCCTCCTCAAAATCTACGCCACCAAATCATGTTCAG                         GGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCT
genomic: CAGCATTCTCGTCCTCCTCCTCAAAATCTACGCCACCAAATCATGTTCAGgtctctctct ... tatttttcagGGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCT
EST: gi|298196794|gb|HO041537.1|HO041537
EST:     CAGCATTCTCGTCCTCCTCCTCAAAATCTACGCCACCAAATCATGTTCAG                         GGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCT
genomic: CAGCATTCTCGTCCTCCTCCTCAAAATCTACGCCACCAAATCATGTTCAGgtctctctct ... tatttttcagGGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCT
EST: gi|151404363|gb|EV274173.1|EV274173
EST:     CAGCATTCTCGTCCTCCTCCTCAAAATCTACGCCACCAAATCATGTTCAG                         GGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCT
genomic: CAGCATTCTCGTCCTCCTCCTCAAAATCTACGCCACCAAATCATGTTCAGgtctctctct ... tatttttcagGGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctatgtttgatttccatcattttaccgattgtttggaactgttatttttcagGGATTTCTCGCAAGACTCAAGAGCTGTACGCGATTGTGTTCGTGGCACGCTATTTGGATCTGTTCACGGACTTCATATCCGTTTACAACACCTTCATGAA
       gtttgat  putative branch site (score: 5)
                                            ttatttttc  putative PPT
                                          tgttattttt  TA-rich tract