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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattcaacccactcactcacccatctccatttatttttttaaaatgttaattactttgttctgaattgaataaatttgattgattaatttttgcagGTAAGGCGATTTTCGGTGAGAAAGAGTGGTACTTTTTCAGCCCTAGAGACAGGAAATACCCTAACGGGTCCCGACCCAACAGAGTAGCCGGGTCGGGTTA

Basic information

species Glycine max
transcript GLYMA12G35000.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G35000.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv19s0014g03290.t01 (Vitis vinifera), 3'ss of exon 1
gtaattcaacccactcactcacccatctccatttatttttttaaaatgttaattactttgttctgaattgaataaatttgattgattaatttttgcagGTAAGGCGATTTTCGGTGAGAAAGAGTGGTACTTTTTCAGCCCTAGAGACAGGAAATACCCTAACGGGTCCCGACCCAACAGAGTAGCCGGGTCGGGTTA
            | | | ||    | || | |||  |  || ||  ||        ||||||    ||   ||  ||||  |||      || ||||||||| || || || || ||||||||||||||||||||||| || |||||  |||| ||||| || |||||| ||||||| || || || ||||| || ||
------gtgagtattgattcgaaaacctgcgttttctgcttcaatttg------gatttgtttctgatc--atttatttacttg------ttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATCGGAAGTACCCAAATGGGTCCAGACCCAATAGGGTTGCTGGGTCTGGGTA

upper sequence: GLYMA12G35000.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S259_67V6.1 (Physcomitrella patens), 3'ss of exon 1
-----gtaattcaacccactcactcacccatctccatttatttttttaaaatgttaattactttgttctgaattgaataaatttgattgattaatttttgcagGTAAGGCGATTTTCGGTGAGAAAGAGTGGTACTTTTTCAGCCCTAGAGACAGGAAATACCCTAACGGGTCCCGACCCAACAGAGTAGCCGGGTCGGGTTA
     | ||   | |  |    |  ||  || | |    | | | | ||| | | ||   | |     | ||  ||||  |||   |   || ||||  ||||| ||||| ||||| || ||   ||||||||| ||||||||||| ||||||||||||||||| || ||  | || || ||| |||  || |  || || ||
ttgttgaaacatagcagagcggcctactgattttccgggaatctgtaaaagt-tcaagagcgtataaattaaaagaatcgattctctactttgattt--gcagGCAAGGCTATTTTTGGAGAAGGAGAGTGGTATTTTTTCAGCCCAAGAGACAGGAAATACCCAAATGGAGCTCGCCCTAACCGAGCTGCAGCTTCCGGATA
















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|163923386|gb|EH039689.1|EH039689
EST:     AATCATTGCTGAAATTGATTTGTACAAGTTCGACCCATGGGTTCTTCCAA                         GTAAGGCGATTTTCGGTGAGAAAGAGTGGTACTTTTTCAGCCCTAGAGACA
genomic: AATCATTGCTGAAATTGATTTGTACAAGTTCGACCCATGGGTTCTTCCAAgtaattcaac ... atttttgcagGTAAGGCGATTTTCGGTGAGAAAGAGTGGTACTTTTTCAGCCCTAGAGACA
EST: gi|12490050|gb|BG043571.1|BG043571
EST:     AATCATTGCTGAAATTGATTTGTACAAGTTCGACCCATGGGTTCTTCCAA                         GTAAGGCGATTTTCGGTGAGAAAGAGTGGTACTTTTTCAGCCCTAGAGACA
genomic: AATCATTGCTGAAATTGATTTGTACAAGTTCGACCCATGGGTTCTTCCAAgtaattcaac ... atttttgcagGTAAGGCGATTTTCGGTGAGAAAGAGTGGTACTTTTTCAGCCCTAGAGACA
EST: gi|19271096|gb|BM887352.1|BM887352
EST:     AATCATTGCTGAAATTGATTTGTACAAGTTCGACCCATGGGTTCTTCCAA                         GTAAGGCGATTTTCGGTGAGAAAGAGTGGTACTTTTTCAGCCCTAGAGACA
genomic: AATCATTGCTGAAATTGATTTGTACAAGTTCGACCCATGGGTTCTTCCAAgtaattcaac ... atttttgcagGTAAGGCGATTTTCGGTGAGAAAGAGTGGTACTTTTTCAGCCCTAGAGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatgttaattactttgttctgaattgaataaatttgattgattaatttttgcagGTAAGGCGATTTTCGGTGAGAAAGAGTGGTACTTTTTCAGCCCTAGAGACAGGAAATACCCTAACGGGTCCCGACCCAACAGAGTAGCCGGGTCGGGTTA
                                        gattaat  putative branch site (score: 3)
                                              tttttgc  CT-rich tract
                 ttctgaattgaataaa  TA-rich tract