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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatccttcttgctgtagtctgcttgttcattctagttttcatttatctgttccattccattttaaatttgacaaagtttatacttctataatgtagCATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGTTTGTCTATGAGTGACT

Basic information

species Glycine max
transcript GLYMA16G01680.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G01680.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G17280.1 (Arabidopsis thaliana), 3'ss of exon 5
--gtaatcc--ttcttgctgtagtctgcttgttcattctagttttcatttatctgttccattccattttaaatttgacaaagtttatacttctataatgtagCATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGTTTGTCTATGAGTGACT
   |  |||  |  || ||  |   |   | |  |   || | ||   | || |  |   | |  ||||  | |  || || | | |   | | |     || ||||||||||| ||||| || |||||||||||||| || || ||||| ||||||||||| |
gtatgttccaatggttcctccaaattcagtctcaacattactcttacctcattt--tttgtccagttttttaatgaaccaaatctttttctgtttgcctcagAATGACTACACCAAATGGTCGATTCATGACACAGAAGAAAATTTGTTTATCTATGAGTGATT

upper sequence: GLYMA16G01680.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g00280.t01 (Vitis vinifera), 3'ss of exon 6
----------------------------------gtaatccttc-ttgctgtagtctgcttgttcattctagttttcatttatctgttccattccattttaaatttgacaaagtttatacttctataatgtagCATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGTTTGTCTATGAGTGACT
                                  | |||  |   ||||| |   | ||    |  | ||  | || || |||   |    || | |||||| ||| |  | ||||    | || |  ||||||||||| || || ||||||||||| |||||||| || || ||||| || || |||||||| |
gtattctgtattctggctacttcaattttcccaagaaatattctgttgcttttagcagcagtattttacttatattaatgtattcatgtagttgc-ttttaattttaatgacgttt----tcctctcttgtagCATGACCACTCCCAATGGACGGTTTATGACACAAAAGAAAATCTGCTTATCCATGAGTGATT
















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|17964448|gb|BM271183.1|BM271183
EST:     GGAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAG                         CATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGT
genomic: GGAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAGgtaatccttc ... tataatgtagCATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGT
EST: gi|16349197|gb|BI974792.1|BI974792
EST:     GGAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAG                         CATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATC
genomic: GGAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAGgtaatccttc ... tataatgtagCATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATC
EST: gi|15661834|gb|BI699205.1|BI699205
EST:     AGAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAG                         CATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGTTTGTC
genomic: -GAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAGgtaatccttc ... tataatgtagCATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGTTTGTC
EST: gi|151399625|gb|EV269496.1|EV269496
EST:     GGAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAG                         CATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGTTTGTC
genomic: GGAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAGgtaatccttc ... tataatgtagCATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGTTTGTC
EST: gi|192330701|gb|FK022314.1|FK022314
EST:     GGAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAG                         CATGACTACACCTAATGGACGGTTCATGACACAGAAAAA
genomic: GGAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAGgtaatccttc ... tataatgtagCATGACTACACCTAATGGACGGTTCATGACACAGAAAAA
EST: gi|13790033|gb|BG652624.1|BG652624
EST:     GGAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAG                         CATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGTTTGTC
genomic: GGAAAAATCAAGTTTCCTCCTGAATATCCATATAAACCTCCTGGAATCAGgtaatccttc ... tataatgtagCATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGTTTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatctgttccattccattttaaatttgacaaagtttatacttctataatgtagCATGACTACACCTAATGGACGGTTCATGACACAGAAAAAGATCTGTTTGTCTATGAGTGACT
                        atttgac  putative branch site (score: 4)
                                       tacttct  putative PPT
                 attttaaatttgacaa  TA-rich tract