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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtttcagattcctctaaagagttgttattgtttctttagcgtctctgatcactgctgatttcgagccttttgagaggaatttatggaatctctaaaaagctgagatttttgagttaacttgcagtgatctctctgtttcattgtttatctcagGCTTTATTATGCAAAAATTGGAATTGGAACACCTGCTAAGAGCTATTATGTTCAAGTCGACACAGGGAGTGATATTATGTGGGTTAACTGCATCCAGTGC

Basic information

species Arabidopsis thaliana
transcript AT1G05840.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G05840.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA08G29040.1 (Glycine max), 3'ss of exon 1
gtcagtttcagattcctctaaagagttgttattgtttctttagcgtctctgatcactgctgatttcgagccttttgagaggaatttatggaatctctaaaaagctgagatttttgagttaacttgcagtgatctctctgtttcattgtttatctcagGCTTTATTATGCAAAAATTGGAATTGGAACACCTGCTAAGAGCTATTATGTTCAAGTCGACACAGGGAGTGATATTATGTGGGTTAACTGCATCCAGTGC
                                                                                | |  |    || | ||||     | | ||||||||   | |||            ||| |||||| | | | | |||||||||||||| ||||| || |||||||| ||| | ||||  || ||| | ||||| ||||| || ||||||||||||||||| || ||||| ||||||
--------------------------------------------------------------------------------gtaactccctaaccactaattcattaa-atttttgaaccatcttctgaa-------ctgattcattctgtttgt-agGCTTTATTATGCTAAAATAGGGATTGGAACTCCTCCGAAGAATTACTATTTACAAGTGGACACTGGCAGTGATATTATGTGGGTAAATTGCATTCAGTGC

upper sequence: AT1G05840.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv05s0062g01370.t01 (Vitis vinifera), 3'ss of exon 1
gtcagtttcagattcctctaaagagttgttattgtttctttagcgtctctgatcactgctgatttcgagccttttgagaggaatttatggaatctctaaaaagctgagatttttgagttaacttgcagtgatctctctgtttcattgtttatctcagGCTTTATTATGCAAAAATTGGAATTGGAACACCTGCTAAGAGCTATTATGTTCAAGTCGACACAGGGAGTGATATTATGTGGGTTAACTGCATCCAGTGC
                                                       |     |  | ||     |||  |    |  | |   |      | |  || | ||| |  | | ||||    | || | | | |||||   |||     |||||||| ||||| |||||||| ||||||||||| || | |  ||| ||||| ||||| || ||||| ||||| |||||||||||||| || || ||||||
------------------------------------------------------gccaaacacctggaaaaccttgtaattgttacaagttcttgtatgacatgtgtgctttctatgcttactt-tgttaatatatgtttttcaaaattt--tgtagGCTTTACTATGCTAAAATTGGGATTGGAACACCGGCAAGGGACTACTATGTACAAGTAGATACAGGAAGTGACATTATGTGGGTTAATTGTATTCAGTGC
















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|164144380|gb|ES106015.1|ES106015
EST:     CTGGAATCGATCTACCCCTTGGTGGAACTGGTCGACCCTGATATCCCCGG                         GCTTTATTATGCAAAAATTG
genomic: CTGGAATCGATCTACCCCTTGGTGGAACTGGTCG-CCCTGATATCCCCGGgtcagtttca ... tttatctcagGCTTTATTATGCAAAAATTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgagatttttgagttaacttgcagtgatctctctgtttcattgtttatctcagGCTTTATTATGCAAAAATTGGAATTGGAACACCTGCTAAGAGCTATTATGTTCAAGTCGACACAGGGAGTGATATTATGTGGGTTAACTGCATCCAGTGC
             agttaac  putative branch site (score: 3)
                                             tttatctc  putative PPT
                                         attgtttat  TA-rich tract