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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtaattccttctcgtttaattagccaatatctagacagtaacacataatatgctttatagttctagtggtgtgaatatttccatgattccatcaatttcctttgtggtttgcatactaaacttagttcatctgtttttcattctttttttggggattgcagATGGTAACAAATATAAAGGTGGCATCTATATGGTCTTTGAATACATGGACCATGATTTAACAGGTCTTGCTGACCGACCTGGGATGAGATTTACAGTTCC

Basic information

species Glycine max
transcript GLYMA14G04410.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G04410.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0009g01800.t01 (Vitis vinifera), 3'ss of exon 5
gcaagtaattccttctcgtttaattagccaat--atctagacagtaacacataatatgctttatagttctagtg----------gtgtgaatatttccatga----------ttccatcaat-ttcctttgtggtttg---catactaaa---cttagttcatctgtttttcattctttttttggggattgcagATGGTAACAAATATAAAGGTGGCATCTATATGGTCTTTGAATACATGGACCATGATTTAACAGGTCTTGCTGACCGACCTGGGATGAGATTTACAGTTCC
||||||| ||  || || | |  |  |  |    |||  ||   ||   |||   |||||||    |  | ||           ||| | |||||| |||||          || ||| ||| || |    |    ||   | ||||| |   |  ||    |||| | |  | |   ||  | ||| ||||||||||||| || || ||||| |||||||| ||||| ||||||||||||||||||||||| || ||||||||||| || ||||||||||||||| |||| ||
gcaagtactttattgtcatgtgctatgttagccaatcatgatgttagtgcattgcatgctttcctatgttggttcacttatcacgtgaggatattttcatgaacttaaaaagttacataaatattgccgcataagctggtccttactagagtaccaagaatttctgatatcaacttcattacttggggttgcagATGGTAATAAGTACAAAGGAGGCATCTACATGGTTTTTGAATACATGGACCATGATTTGACTGGTCTTGCTGATCGTCCTGGGATGAGATTTTCAGTCCC
















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|213617624|gb|DB969336.1|DB969336
EST:     GTCCTGAGAAAGATGAACAGGGGAAGCCAG                         ATGGTAACAAATATAAAGGTGGCATCTATATGGTCTTTGAATACATGGACC
genomic: GTCCTGAGAAAGATGAACAGGGGAAGCCAGgcaagtaatt ... gggattgcagATGGTAACAAATATAAAGGTGGCATCTATATGGTCTTTGAATACATGGACC
EST: gi|11275076|gb|BF325399.1|BF325399
EST:     GTCCTGAGAAAGATGAACAGGGGAAGCCAG                         ATGGTAACAAATATAAAGGTGGCA
genomic: GTCCTGAGAAAGATGAACAGGGGAAGCCAGgcaagtaatt ... gggattgcagATGGTAACAAATATAAAGGTGGCA
EST: gi|193694291|gb|FK630331.1|FK630331
EST:     GTCCTGAGAAAGATGAACAGGGGAAGCCAG                         ATGGTAACAAATATAAAGGTGGCATCTATATGGTCTTTGAATACATGGACC
genomic: GTCCTGAGAAAGATGAACAGGGGAAGCCAGgcaagtaatt ... gggattgcagATGGTAACAAATATAAAGGTGGCATCTATATGGTCTTTGAATACATGGACC
EST: gi|19348210|gb|BM892742.1|BM892742
EST:     GTCCTGAGAAAGATGAACAGGGGAAGCCAG                         ATGGTAACAAATATAAAGGTGGCATCTATATGGTCTTTGAATACATGGACC
genomic: GTCCTGAGAAAGATGAACAGGGGAAGCCAGgcaagtaatt ... gggattgcagATGGTAACAAATATAAAGGTGGCATCTATATGGTCTTTGAATACATGGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgcatactaaacttagttcatctgtttttcattctttttttggggattgcagATGGTAACAAATATAAAGGTGGCATCTATATGGTCTTTGAATACATGGACCATGATTTAACAGGTCTTGCTGACCGACCTGGGATGAGATTTACAGTTCC
       tactaaa  putative branch site (score: 1)
                           tttttcattctttttt  TA-rich tract