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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acattgtcttatgtgatttccctaggatgttacaaagctcatataattcctttagtgatttcttctctgttcttgcttcaatttaacaaaatctttacagGTTCGTTTCCTGGCAAGGTCTTTTGGTGTCCCTGGAAATCATCTTGGACAACAAAGTCATGGTTTTCGTTGGCCATATGGTCCC

Basic information

species Glycine max
transcript GLYMA05G01300.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G01300.2 (Glycine max), 3'ss of exon 6
lower sequence: AT5G62530.1 (Arabidopsis thaliana), 3'ss of exon 6
---------------------------------------------------------------------------acattgtcttatgtgatttccctaggatgttacaaagctcatataattcctttagtgatttcttc-----tctgttcttgcttcaatttaacaaaatctttacagGTTCGTTTCCTGGCAAGGTCTTTTGGTGTCCCTGGAAATCATCTTGGACAACAAAGTCATGGTTTTCGTTGGCCATATGGTCCC
                                                                           |  || ||  |  ||  |        || | |      |     |||| |   | | |  ||||      | ||||  || ||    || ||    | ||  ||||| || ||||||||| |||||||||   ||||||| ||||||||||| || |||||||||||||  |||||||| |||||||| 
gtacattactctcttcaccattttttattttggttcctggctattagtttcaacaacttagtaattcttgaaggcatgttctcaaaaatgcctatatagacatttcatgtttgtggctgaatttccgaaattacatctttaaatgtatgtttatgatttcgcttcactttcttttatcagGTGCGGTTCCTGGCACGGTCTTTTGCAATCCCTGGGAATCATCTTGGGCAGCAAAGTCATGGTTACCGTTGGCCTTATGGTCCT

upper sequence: GLYMA05G01300.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv17s0000g05800.t01 (Vitis vinifera), 3'ss of exon 6
--acattgtcttatgtgatttccctaggatgttacaaagctcatataattcctttagtgatttcttctctgttcttgcttcaatttaacaaaatcttta-cagGTTCGTTTCCTGGCAAGGTCTTTTGGTGTCCCTGGAAATCATCTTGGACAACAAAGTCATGGTTTTCGTTGGCCATATGGTCCC
   |||| | | |  | ||  || || | | |    ||  |  | |  |    |||      | || ||| ||||   |||    |  ||   | | |  ||||||||||||||||| ||||||||||  || || |||||||||||||| || ||||||||||||||||||||||| |||||||| 
gggcatt-tttcagctcatgacc-tatggtctcttgaa-ttagtgtgctagggttaactgcattttatcttttctcatttctccctttcactgtatctggcagGTTCGTTTCCTGGCGAGGTCTTTTGCAGTGCCAGGAAATCATCTTGGGCAGCAAAGTCATGGTTTTCGTTGGCCTTATGGTCCG
















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|192329935|gb|FK021521.1|FK021521
EST:     GGGAAGCTTATGTGACACAAAAGTTTCTAGAGAATTTTTGCGGGGATCAG                         GTTCGTTTCCTGGCAAGGTCTTTTGGTATCCCTGGAAATCATCTTGGACAA
genomic: GGGAAGTTTATGTGACACAAAAGTTTCTAGAGAATTTTTGCGGGGATCAGgtatatcaaa ... atctttacagGTTCGTTTCCTGGCAAGGTCTTTTGGTGTCCCTGGAAATCATCTTGGACAA
EST: gi|22931742|gb|BU548881.1|BU548881
EST:     GGGAAGTTTATGTGACACAAAAGTTTCTAGAGAATTTTTGCGGGGATCAG                         GTTCGTTTCCTGGCAAGGTCTTTTGGTGTCCCTGGAAATCATCTTGGACAA
genomic: GGGAAGTTTATGTGACACAAAAGTTTCTAGAGAATTTTTGCGGGGATCAGgtatatcaaa ... atctttacagGTTCGTTTCCTGGCAAGGTCTTTTGGTGTCCCTGGAAATCATCTTGGACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcctttagtgatttcttctctgttcttgcttcaatttaacaaaatctttacagGTTCGTTTCCTGGCAAGGTCTTTTGGTGTCCCTGGAAATCATCTTGGACAACAAAGTCATGGTTTTCGTTGGCCATATGGTCCC
                                   atttaac  putative branch site (score: 3)
                                              tctttac  putative PPT
                               ttcaatttaacaaaat  TA-rich tract