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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttttaacttttagcctggttcttaccagtttcactgtacactttcatgcataacttaccatttttccttgtggacccattaacaaacaaacaaacagAACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCATTCAGGAAGAACCTTTCAAGCAGCAGCAGTGCTTCTAAGCCACCACCACCTCCTGAG

Basic information

species Glycine max
transcript GLYMA13G43050.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G43050.2 (Glycine max), 3'ss of exon 2
lower sequence: AT1G51950.1 (Arabidopsis thaliana), 3'ss of exon 1
---tttttttaacttttagcctggttcttaccagttt----cactgtacactttcatgcataacttaccatttttccttgtggacccattaacaaacaaacaaacagAACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCATTCAGGAAGAACCTTTCAAGCAGCAG-----CAGTGCTTCTAAGCCACCACCACCTCCTGAG
   |   | |   |  |  ||| ||| |   | ||||    |  ||      ||| ||  | ||| || | ||||  ||   ||  | ||        ||     ||||||||||||| |||||||||||| ||||| ||  |||| || |||||||||||  |  | ||  | ||     ||  ||||  ||   ||  | ||| ||    
gtttcagtctttttactgccctagttttcctctgtttttaaccttgagattgttcttgtcttactaacaagttttgtttt--gatgcctttgtgttttaa-----agAACTGCTCCTGGTCCAGTGGTGGGATGGCCTCCGGTTCGATCCTTCAGGAAGAATTTAGCTAGTGGAAGTTCTTCAAAGCTTGGAAATGACT-CAACCACC----

upper sequence: GLYMA13G43050.2 (Glycine max), 3'ss of exon 2
lower sequence: AT3G16500.1 (Arabidopsis thaliana), 3'ss of exon 1
tttttttaacttttagcct-ggttcttac-cagtttcactgtacactt-tcatgcataacttaccatttttccttgtggacccattaacaaacaaacaaacagAACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCATTCAGGAAGAACCTTTCAAGCAGCAGCAGTGCTTCTAAGCCAC-CACCACCTCCTGAG--
 ||       |   ||  |      |||| | ||||  || |    || || |     | | ||   | |  |||||    |  || | |        || ||||||||||||| |||||||||||| ||||| ||  ||||||| ||||| ||||| ||  | ||||  |||    |||| |||| |   | |   ||||     
cttcacatgttaaaagtttcaacatttactctgttttgctctgtttttgtcgtttggtattgacatatgtctcttgtt--tcttttgatatctggttcaa-agAACTGCTCCTGGTCCAGTGGTGGGTTGGCCTCCGGTTCGTTCGTTCAGAAAGAATCTAGCGAGCACAAGCT---CTTCAAAGCTAGGTAACGAATCCTCTCAT

upper sequence: GLYMA13G43050.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv09s0002g03410.t01 (Vitis vinifera), 3'ss of exon 3
tttttttaacttttagcctggttcttaccagtttcactgtacactttcatgcataacttaccatttttccttgtg-gacccat---taacaaacaaaca-aacagAACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCATTCAGGAAGAACCTTTCAAGCAGCAGCAGTGCTTCTAAGCCA-CCACCACCTCCTGAG--
     |||   |||   ||   | |    | |    || |     |  |   |   || ||    |  |||| || | | |||   || |||| ||| | || ||| |||| ||| || |||| ||||||||||| |||||||| ||||| |||||||| ||| |||| || |||    |||| || ||  | | |   |||  ||  
-----ttaggatttgatctctctttgtgaattggtgctttgattctctacatacctctaacttcatcaccttttgtgtctcatgtgtaccaaaaaaaaacaaaagATCTGCGCCTACTGCAGTTGTGGGGTGGCCTCCAATTCGATCATTTAGGAAGAATCTTGCAAGTAGTAGCT---CTTCGAAACCGGCTAACGAGTCCCAAGAT

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|302141315|gb|HO212191.1|HO212191
EST:     CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCTAACACCTCTCAGAAAAG                         AACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCATTCAGGAA
genomic: CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCTAACACCTCTCAGAAAAGgtactccacc ... aaacaaacagAACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCATTCAGGAA
EST: gi|11689099|gb|BF596775.1|BF596775
EST:     CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCTAACACCTCTCAGAAAAG                         AACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCATTCAGGAA
genomic: CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCTAACACCTCTCAGAAAAGgtactccacc ... aaacaaacagAACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCATTCAGGAA
EST: gi|7692407|gb|AW760514.1|AW760514
EST:     CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCTAACACCTCTCAGAAAAG                         AACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCATTCAGGAA
genomic: CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCTAACACCTCTCAGAAAAGgtactccacc ... aaacaaacagAACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCATTCAGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatgcataacttaccatttttccttgtggacccattaacaaacaaacaaacagAACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCATTCAGGAAGAACCTTTCAAGCAGCAGCAGTGCTTCTAAGCCACCACCACCTCCTGAG
                                  cattaac  putative branch site (score: 2)
                                   attaacaaa  TA-rich tract