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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttggttttgtgcttgccatatgtatgaacaatttttagttatgttctatctcagaaagtgggatttctgtggtcttgtagGTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGTGTTCAACTTCACATTGGTGATG

Basic information

species Arabidopsis thaliana
transcript AT5G53120.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G53120.4 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G120578_T02 (Zea mays), 3'ss of exon 5
gtaagtttttggttttgtgctt--gccatatgtatgaacaatttttagttatgttctatctcagaaagtgggatttctgtggtcttgtagGTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGTGTTCAACTTCACATTGGTGATG
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gtaaggttctcctttggtgtcttaaccttaagtgtagtca---cttagttatacttcgc---------tgatatacatcttatttcttagATCTGCAAGGAATTCTTCCCACATTTGTCTGTTGGATTTGAAGATCCTCGTGTTCAACTTCATGTTGGTGACG
















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|47829276|gb|CK118960.1|CK118960
EST:     GTTCTGTTGAGGTTATTGATATCTGTGAGATAGACAAGATGGTTATAGAT                         GTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGT
genomic: GTTCTGTTGAGGTTATTGATATCTGTGAGATAGACAAGATGGTTATAGATgtaagttttt ... ggtcttgtagGTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGT
EST: gi|86080625|gb|DR376382.1|DR376382
EST:     GATATCTGTGAGATAGACAAGATGGTTATAGAT                         GTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGT
genomic: GATATCTGTGAGATAGACAAGATGGTTATAGATgtaagttttt ... ggtcttgtagGTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGT
EST: gi|124841629|gb|EH926066.1|EH926066
EST:     GTTCTGTTGAGGTTATTGATATCTGTGAGATAGACAAGATGGTTATAGAT                         GTGTCTAAGAAGTTCTTCCCCGAGTTAGCGG
genomic: GTTCTGTTGAGGTTATTGATATCTGTGAGATAGACAAGATGGTTATAGATgtaagttttt ... ggtcttgtagGTGTCTAAGAAGTTCTTCCCCGAGTTAGCGG
EST: gi|86073008|gb|DR368765.1|DR368765
EST:     GTTCTGGTGAGGGTATTGATATCTGTGAGA-AGACAAGATGGGTATAGAT                         GTGTCTAAGAAGTTCT-CCCCGAGTTAGCGGTNNGGTTTGACGATCCTCGT
genomic: GTTCTGTTGAGGTTATTGATATCTGTGAGATAGACAAGATGGTTATAGATgtaagttttt ... ggtcttgtagGTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGT
EST: gi|86079304|gb|DR375061.1|DR375061
EST:     TATCTGTGAGATAGACAAGAT-GKTATAGAT                         GTGTCTAAGAAG-TC-TCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGT
genomic: TATCTGTGAGATAGACAAGATGGTTATAGATgtaagttttt ... ggtcttgtagGTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGT
EST: gi|47831735|gb|CK121419.1|CK121419
EST:     GTTCTGTTGAGGTTATTGATATCTGTGAGATAGACAAGATGGTTATAGAT                         GTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGT
genomic: GTTCTGTTGAGGTTATTGATATCTGTGAGATAGACAAGATGGTTATAGATgtaagttttt ... ggtcttgtagGTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaacaatttttagttatgttctatctcagaaagtgggatttctgtggtcttgtagGTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGTGTTCAACTTCACATTGGTGATG
     atttttagttatgtt  TA-rich tract