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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagatttttcttacttttacttgaaaatattgtaagctattgggaagcataatttttaaggtctaagcgtgttgttttgtactgcatatgtgtcgacatctatgtcaattcatgtcaaactagcaagagtcttccttatgtgtataccttttaattgtagGTGGTGCGTTTAGCTTCTTTCCAAAATGCTCCATCTGTTCCACCATTCTTATCATTGCCAAGACAATCTAGAGGTGATAGCGATGACATAATGGATGAAA

Basic information

species Arabidopsis thaliana
transcript AT5G24710.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G24710.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA19G41130.2 (Glycine max), 3'ss of exon 11
gtagatttttcttacttttacttgaaaatattgtaagctattgggaagcataatttttaaggtctaagcgtgttgttttgtactgcatatgtgtcgacatctatgtcaattcatgtcaaactagcaagagtcttccttatgtgtataccttttaattgtagGTGGTGCGTTTAGCTTCTTTCCAAAATGCTCCATCTGTTCCACCATTCTTATCATTGCCAAGACAATCTAGAGGTGATAGCGATGACATAATGGATGAAA-
                                     ||||       |||| | || || |||  | | ||||  | ||   |   | ||    |   | | | ||||   |||| || |||       |||| ||| |       || |   | | |||||||| || || ||||| || ||  ||||||| || |||||||| ||||||||||| |||| ||||||||||| |||||| |||||| |  ||||||  | 
------------------------------------actatct-----cata-tgttaaaagtc--aacatgtt--tctggtttctctttggaatgttttttctctcaaaaaatgtaaagctatt-----tctttcttgt-------ccct---actctagGTGGTTCGGTTGGCTTCATTTCAGCATGCTCCTTCAGTTCCACCTTTCTTATCATTACCAAAACAATCTAGAGTTGATAGTGATGAC-TCTTGGATGGCAA

upper sequence: AT5G24710.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA03G38530.1 (Glycine max), 3'ss of exon 15
gtagatttttcttacttttacttgaaaatattgtaagctattgggaagcataatttttaaggtctaagcgtgttgttttgtactgcatatgtgtcgacatctatgtcaattcatgtcaaactagcaagagtcttccttatgtgtataccttttaattgtagGTGGTGCGTTTAGCTTCTTTCCAAAATGCTCCATCTGTTCCACCATTCTTATCATTGCCAAGACAATCTAGAGGTGATAGCGATGACATAATGGATGAAA-
                                                  | || | | |   || | | |||| | | ||    | |  |  |     | | | ||||        |||   | ||   | || |||   |||   || |   | | |||||||| || || ||||| || ||  ||||||| || |||||||| ||| ||||||| |||| ||||||||||| |||||| |||||| |  ||||||  | 
----------------------------------------------tatctcatatgttaaaactcaacatgtt-tctggtttctctttggaatttgtttttctctcaa--------aaaaatgtaaagctatttctttcttgt---ccct---actctagGTGGTTCGGTTGGCTTCATTTCAGCATGCTCCTTCAGTTCCACCTTTCATATCATTACCAAAACAATCTAGAGTTGATAGTGATGAC-TCTTGGATGGCAA
















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|86067478|gb|DR363235.1|DR363235
EST:     CCCAGGCTGCAAAGCAAGAAAGGATATCTTTAAGGCCCCCCATGCTGCAG                         GTGGTGCGTTTAGCTTCTTTCCAAAATGCTCCATCTGTTCCACCATTCTTA
genomic: CCCAGGCTGCAAAGCAAGAAAGGATATCTTTAAGGCCCCCCATGCTGCAGgtagattttt ... ttaattgtagGTGGTGCGTTTAGCTTCTTTCCAAAATGCTCCATCTGTTCCACCATTCTTA
EST: gi|86067479|gb|DR363236.1|DR363236
EST:     CCCAGGCTGCAAAGCAAGAAAGGATATCTTTAAGGCCCCCCATGCTGCAG                         GTGGTGCGTTTAGCTTCTTTCCAAAATGCTCCATCTGTTCCACCATTCTTA
genomic: CCCAGGCTGCAAAGCAAGAAAGGATATCTTTAAGGCCCCCCATGCTGCAGgtagattttt ... ttaattgtagGTGGTGCGTTTAGCTTCTTTCCAAAATGCTCCATCTGTTCCACCATTCTTA
EST: gi|86067477|gb|DR363234.1|DR363234
EST:     CCCAGGCTGCAAAGCAAGAAAGGATATCTTTAAGGCCCCCCATGCTGCAG                         GTGGTGCGTTTAGCTTCTTTCCAAAATGCTCCATCTGTTCCACCATTCTTA
genomic: CCCAGGCTGCAAAGCAAGAAAGGATATCTTTAAGGCCCCCCATGCTGCAGgtagattttt ... ttaattgtagGTGGTGCGTTTAGCTTCTTTCCAAAATGCTCCATCTGTTCCACCATTCTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caattcatgtcaaactagcaagagtcttccttatgtgtataccttttaattgtagGTGGTGCGTTTAGCTTCTTTCCAAAATGCTCCATCTGTTCCACCATTCTTATCATTGCCAAGACAATCTAGAGGTGATAGCGATGACATAATGGATGAAA
                                           ttttaat  putative branch site (score: 3)
                                       tacctttt  CT-rich tract
                                     tataccttttaatt  TA-rich tract