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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacaccttgaagtgtcttgcggggttgattataccttctagcgctttgctgctccattctgctcgtctcactgattttgtatttatttgaatgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCATGCACAGAAGAGTTCCCTCTGTCAGCAATGAACCCATATGGACGAACTA

Basic information

species Glycine max
transcript GLYMA11G01940.4
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G01940.3 (Glycine max), 3'ss of exon 3
lower sequence: AT4G10960.1 (Arabidopsis thaliana), 3'ss of exon 3
aacaccttgaagtgtcttgcggggttg-attataccttctagcgctttgctgctccattctgctcgtctcactgattttgtatttatttgaatgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCATGCACAGAAGAGTTCCCTCTGTCAGCAATGAACCCATATGGACGAACTA
         | || |  |  |    |  |  | |  ||| |   | ||  | ||    |       |     |||||   || || ||    || || ||||| ||||| || || ||||||||||| ||||| |  ||||| |||||||| || ||||| ||||| ||  | || ||  ||||||||||||||||||| |
-------gtatgtataatttgccactacacaacaagttcgaatccatttttactttgcttgatcaattctcatgattagctactt-ttactctgtttccagCTTGTGTTTTCATCATCAGCAACTGTGTATGGCTCTCCAAAAGAAGTTCCTTGTACAGAGGAGTTTCCAATTTCTGCTTTGAACCCATATGGACGAACAA

upper sequence: GLYMA11G01940.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 3
aacaccttgaagtgtctt-gcggggttgattatacctt--ctagcgctttgctgctccattctgctcgtctcactgattttgtatttatttgaatgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCATGCACAGAAGAGTTCCCTCTGTCAGCAATGAACCCATATGGACGAACTA
  |    |    ||| ||  |   |||  || |    |  ||     | |||  |||  ||||  |     |||||| ||   | || |    |  ||||||||| || || || || ||||| ||||| ||||||||||||||||| |||||||| |||||||||||||| || |  ||||  || ||||||||||||||||
tcctttattttttgtttttaccacgtttcttgtgatattactgtttatgtgcaactctgttctaatgtctccactgacttctaaattctc---aacatttcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA

upper sequence: GLYMA11G01940.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0025g01580.t01 (Vitis vinifera), 3'ss of exon 3
-aacaccttgaagtgtcttgcggggttgattatacctt--ctagcgctttgctgctccattctgctcgtctcactgattttgtatttatttgaatgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCATGCACAGAAGAGTTCCCTCTGTCAGCAATGAACCCATATGGACGAACTA
  |  | |     | | ||     |||  || |    |  ||     | |||  |||  |||   |    ||||||||||   |||| |   ||| ||||||||| || || || || ||||| ||||| ||||||||||||||||| |||||||| |||||||||||||| || |  ||    || |||||||||||||| |
agatgcatgccttttttttagcatgtttcttgtgatgttactgtttatatgcaactctgttcaaatgtcttcactgatttctaatttctc--aat-atttcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCGCTATGTGCTGCAAATCCATATGGACGAACCA

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|19346734|gb|BM891614.1|BM891614
EST:     CTGGGACAATCACTCTATTGGAAGTCATGGCTGCCCATGGATGCAAGAAG                         CTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCA
genomic: CTGGGACAATCACTCTATTGGAAGTCATGGCTGCCCATGGATGCAAGAAGgtaaaatcct ... atgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCA
EST: gi|11275167|gb|BF325490.1|BF325490
EST:     CTGGGACAATCACTCTATTG-AAGTCATGGCTGCCCATGGATGCAAGAAG                         CT-GTGTTCTCTTCT-CAGCA-CTGTATATGGTGGGCCAAAG-AAGT-CCA
genomic: CTGGGACAATCACTCTATTGGAAGTCATGGCTGCCCATGGATGCAAGAAGgtaaaatcct ... atgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCA
EST: gi|213598812|gb|DB968283.1|DB968283
EST:     CTGGGACAATCACTCTATTGGAAGTCATGGCTGCCCATGGATGCAAGAAG                         CTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGT-CCA
genomic: CTGGGACAATCACTCTATTGGAAGTCATGGCTGCCCATGGATGCAAGAAGgtaaaatcct ... atgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCA
EST: gi|19346921|gb|BM891809.1|BM891809
EST:     CTGGGACAATCACTCTATTGGAAGTCATGGCTGCCCATGGATGCAAGAAG                         CTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCA
genomic: CTGGGACAATCACTCTATTGGAAGTCATGGCTGCCCATGGATGCAAGAAGgtaaaatcct ... atgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCA
EST: gi|17022573|gb|BM093607.1|BM093607
EST:     CTGGGACAATCACTCTATTGGAAGTCATGGCTGCCCATGGATGCAAGAAG                         CTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCA
genomic: CTGGGACAATCACTCTATTGGAAGTCATGGCTGCCCATGGATGCAAGAAGgtaaaatcct ... atgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCA
EST: gi|8283435|gb|BE020996.1|BE020996
EST:     CTGGGACAATCACTCTATTGGAAGTCATGGCTGCCCATGGATGCAAGAAG                         CTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCA
genomic: CTGGGACAATCACTCTATTGGAAGTCATGGCTGCCCATGGATGCAAGAAGgtaaaatcct ... atgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctgctccattctgctcgtctcactgattttgtatttatttgaatgatttcagCTCGTGTTCTCTTCTTCAGCAACTGTATATGGTTGGCCAAAGGAAGTTCCATGCACAGAAGAGTTCCCTCTGTCAGCAATGAACCCATATGGACGAACTA
                       cactgat  putative branch site (score: 3)
                            attttgtatttatttg  TA-rich tract