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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttctccaaacttaacaagttttactcgccaaacaacatggtttgggtttttatgtatctaatttcatccagATCACCTCCTCTGGCATTGCAGCCATCCTTGGGGCATTACTTTGCTCAAGTGAATCGAGAATGGAAAAAAGGTTATGAAGTTCAAACATCCCCTGGGGGA

Basic information

species Arabidopsis thaliana
transcript AT3G27325.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G27325.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G06860.1 (Glycine max), 3'ss of exon 4
gtaagttttctccaaacttaaca-agttttactcgccaaacaacatggtttgggtttttatgtatctaatttcatccagATCACCTCCTCTGGCATTGCAGCCATCCTTGGGGCATTACTTTGCTCAAGTGAATCGAGAATGGAAAAAAGGTTATGAAGTTCAAACATCCCCTGGGGGA
             |  |||     | || ||   ||     || ||| ||||      ||  | |   |||| |||||||||||||||  ||||||||||||| || ||||| ||||||||||| |  || |||  |||||||| | |||| ||| | ||||||||  |       || 
----------gttattcttgttgtatttctatgtgctgcttaa-atg-tttgatgggatacatgt---attttatccagATCACCTCCCGTGGCATTGCAGCCTTCATTGGGCCATTACTTTGCACGTGTAAATTCAGAATGGATAGAAGGATATAAGGTTCAAACCACTAACACAGGG

upper sequence: AT3G27325.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G24220.1 (Glycine max), 3'ss of exon 4
gtaagttttctccaaacttaacaagttttactcgccaaacaacatg--gtttgggt-ttttatg---tatcta-atttcatccagATCACCTCCTCTGGCATTGCAGCCATCCTTGGGGCATTACTTTGCTCAAGTGAATCGAGAATGGAAAAAAGGTTATGAAGTTCAAACATCCCCTGGGGGA
||| ||||  | |  | |       || |  | |     | |  ||  | ||   | ||| |||   ||  |  |||| || ||||||||||||| ||||||||||||| || ||||| | ||||||||| |  || |||  |||||||| | |||| ||| | ||||||||  |      ||| 
gtatgtttatttcctattattgttattcttgttgtatttctatgtgctgcttaaatgtttgatgggatacatgtattttattcagATCACCTCCTGTGGCATTGCAGCCTTCATTGGGTCGTTACTTTGCGCGTGTAAATTCAGAATGGATAGAAGGATATAAGGTTCAAACCACGAACACGGGG

upper sequence: AT3G27325.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv13s0047g01150.t01 (Vitis vinifera), 3'ss of exon 4
-----gtaagttttctccaaacttaacaagttttactcgcca--aacaacatggtttgggt---ttttatg----tatctaatttcatccagATCACCTCCTCTGGCATTGCAGCCATCCTTGGGGCATTACTTTGCTCAAGTGAATCGAGAATGGAAAAAAGGTTATGAAGTTCAAACATCCCCTGGGGGA
      ||  |    ||   | | |      | |  |  |||  || |  |||| |||| |   |||||||    |  |   |||  ||||| ||||||||  |||||||||||||||||||||| ||||||||||| || || ||||  ||||||| |||||||||||| |||||| | || |    ||||
gtgagatatatggcttcttgattgacttcactgtggtttccagaaatattatggattggttattttttatgagatttccctgttttttccagGTCACCTCCAGTGGCATTGCAGCCATCCTTGGGTCATTACTTTGCACATGTAAATCAGGAATGGAGAAAAGGTTATGAGGTTCAATCCTCTCGCATGGGA

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|116456274|gb|EG498866.1|EG498866
EST:     CATTCTAACACTCTCAAGTCCACACCA                         ATCACCTCCTCTGGCATTGCAGCCATCCTTGGGGCATTACTTTGCTCAAGT
genomic: CATTCTAACACTCTCAAGTCCACACCAgtaagttttc ... tttcatccagATCACCTCCTCTGGCATTGCAGCCATCCTTGGGGCATTACTTTGCTCAAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttttactcgccaaacaacatggtttgggtttttatgtatctaatttcatccagATCACCTCCTCTGGCATTGCAGCCATCCTTGGGGCATTACTTTGCTCAAGTGAATCGAGAATGGAAAAAAGGTTATGAAGTTCAAACATCCCCTGGGGGA
                                       atctaat  putative branch site (score: 3)
                                             tttcatcc  CT-rich tract
                              tttttatgtatctaat  TA-rich tract