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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccaacaccacacgcataagtattgcagataatatggtgtttgttacttaatatgttataatccaaaaaagaaaaaatcaacgaatatcacggttttgtagATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAATCAATTGGTTGAATCTCTTAGCAACAGGATACAAAATGAG

Basic information

species Glycine max
transcript GLYMA13G05700.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G05700.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G01090.2 (Arabidopsis thaliana), 3'ss of exon 6
ccaacaccacacgcataagtattgcagataatatggtgtttgttacttaa---tatgttataatccaaaaaagaaaaaatcaacgaatatcacggttttgtagATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAATCAATTGGTTGAATCTCTTAGCAACAGGATACAAAATGAG
            | |    ||  | |  || | |  | ||  |||   ||   | | ||   ||      |  ||    | || |           |||||||||||| ||||||||||| || |||||  | ||||||||||||||||| || ||  |  | ||||| ||  ||||| | |  || ||||| 
------------gtaagcctaacgtatctactcttattttcattagagaaatctctattcccatttttcgataaaggcgtaaaagcgctgtcttcatttgtagATTGACGAGGAGATTCTCCAAGAAGTTATCAATATGGGATTTGACAGAAACCACCTCATCGAATCGCTCCGCAACCGAACCCAGAATGAT

upper sequence: GLYMA13G05700.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G29160.2 (Arabidopsis thaliana), 3'ss of exon 6
ccaacaccacacgcataagtattgcagataatatggtgtttgttacttaatatgttataatccaaaaaagaaaaaatcaacgaatatcacggttttgtagATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAATCAATTGGTTGAATCTCTTAGCAACAGGATACAAAATGAG
                     |||  | |    ||   ||||    ||||||   |  | |        || |  | |||    | | | | ||||| ||||  ||||||||||  |||| ||||||||||| ||||||||||| || || ||  |  | ||||||||  ||||||| | |||||| || 
--------------------gttg--gtttcagtgccatttggagattaatagagttcactt--gctgtgatagtaacaatatctcttatg-ttttgcagATCAATGAGGAGATAGTTCAAGAAGTGGTTAACATGGGATTTGATAGAAACCAGGTTTTGGAATCTCTACGCAACAGAACACAAAACGAT

upper sequence: GLYMA13G05700.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv14s0108g01230.t01 (Vitis vinifera), 3'ss of exon 6
ccaacaccacacgcataagtattgcagataatatggtgtttgt-tacttaatatgttata-----atccaaaaaagaaaaaatcaacgaatatcacggttt-tgtagATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAATCAATTGGTTGAATCTCTTAGCAACAGGATACAAAATGAG
           |   ||||  || || | | | || | ||||| |  ||| |||  | |      | |   |  | |  || |||   | |        |  || |||||||||||||||||||||||||||||||||| ||||||||||||||||||| | | |||||||||||| |||||||  |||||||||| 
-------ggttcctttaagggttacatacattttgttctttgtattattattatactctgtgaacagctgcatgaaattaattcactcattgctttacctcatgcagATTGATGAGGAGATTCTTCAGGAAGTGGTTAAGATGGGATTTGACAGGAATCTACTTGTTGAATCTCTTCGCAACAGAGTACAAAATGAT

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|193417616|gb|FK382986.1|FK382986
EST:     AACAAGCCAAAAAG                         ATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAAT
genomic: AACAAGCCAAAAAGgtttggtttt ... ggttttgtagATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAAT
EST: gi|208287380|gb|GE084848.1|GE084848
EST:     CGCGTTATTTAGCAGTGCCACCACCAGATACACTGCAACAAGCCAAAAAG                         ATTGATGAGGAGATTCTTCAGGAAGTGGT
genomic: CGCGTTATTTAGCAGTGCCACCACCAGATACACTGCAACAAGCCAAAAAGgtttggtttt ... ggttttgtagATTGATGAGGAGATTCTTCAGGAAGTGGT
EST: gi|193558860|gb|FK516625.1|FK516625
EST:     CGTTATTTAGCAGTGCCACCACCAGATACACTGCAACAAGACCAAAAAAG                         ATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAA
genomic: CGTTATTTAGCAGTGCCACCACCAGATACACTGCAACAAG-CCAAAAA-Ggtttggtttt ... ggttttgtagATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAA
EST: gi|193727656|gb|FK664496.1|FK664496
EST:     CACCACCAGATACACTGCAACAAGCCAAAAAG                         ATTGATGAGGAGATTCTTCAGGAAGTGGTTAATNTGGGATTTGACAGGAAT
genomic: CACCACCAGATACACTGCAACAAGCCAAAAAGgtttggtttt ... ggttttgtagATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAAT
EST: gi|193621277|gb|FK566803.1|FK566803
EST:     CGCGTTATTTAGCAGTGCCACCACCAGATACACTGCAACAAGCCAAAAAG                         ATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAAT
genomic: CGCGTTATTTAGCAGTGCCACCACCAGATACACTGCAACAAGCCAAAAAGgtttggtttt ... ggttttgtagATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttaatatgttataatccaaaaaagaaaaaatcaacgaatatcacggttttgtagATTGATGAGGAGATTCTTCAGGAAGTGGTTAATATGGGATTTGACAGGAATCAATTGGTTGAATCTCTTAGCAACAGGATACAAAATGAG
 acttaat  putative branch site (score: 4)
     tatgttataatccaaa  TA-rich tract