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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttcttttggaacttttgagttttcaatcacacaaaatttgtagtcttgtgtaatttaaggtaaatctgagttgatgtaaaatgattttttgttctacttcatatgacagATTGATAGATTTGGGCATTTCAAAATTTGGCATGCTGCAGGATCCTTATTAGTTGCTATCTCATTTTCCTCTGTTTTTGGCGGTTGTTTGCCTTGTTCAC

Basic information

species Arabidopsis thaliana
transcript AT2G44280.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G44280.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G16870.1 (Glycine max), 3'ss of exon 3
gtaacttcttttggaacttttgagttttcaatcacacaaaatttgtagtcttgtgtaatttaaggtaaatctgagttgatgtaaaatgattttttgttctacttcatatgacagATTGATAGATTTGGGCATTTCAAAATTTGGCATGCTGCAGGATCCTTATTAGTTGCTATCTCATTTTCCTCTGTTTTTGGCGGTTGTTTGCCTTGTTCAC
        || ||    | ||  ||  |  |     |     |  || ||| |||   |   |  | | | |   ||||  |   |   |   ||||  | |||     || |||| || || ||||| || ||||| || ||||||| ||| ||||| ||||| || || || |||||||| ||||||||||| |||||||| || ||   ||
--------ttgtgtttttctttggtgctacacttttccctgatcttattct-gtgctttcagaccttatttttgattgacatgttaatttccgttgtcttgctt-----gatagATAGACAGGTTTGGACACTTCAAGATATGGCATGGTGCTGGATCTTTATTGGTGGCAATTTCATTTTCTTCTGTTTTTGGTGGTTGTTTACCATGCAAAC

upper sequence: AT2G44280.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv13s0156g00080.t01 (Vitis vinifera), 3'ss of exon 4
gtaacttcttttggaacttttgagtt-ttcaatcacacaaaatttgtagtcttgtgtaatttaaggtaaatctgagttgatgtaaaatgattttttgttc--tacttcatatgacagATTGATAGATTTGGGCATTTCAAAATTTGGCATGCTGCAGGATCCTTATTAGTTGCTATCTCATTTTCCTCTGTTTTTGGCGGTTGTTTGCCTTGTTCAC
                 |||| |||| ||||||||    ||   | |  | || | |  |  ||   |||    ||||     ||||| |||||   |||  |  || |  |||||||| || || ||||| ||||||||||| |||||||  ||||||||  | || |||||| | ||||||||||| ||||||||||||||  | |||||   | 
---------------ttttttcagttcttcaatcattttaatcctttctttttttttggt--aaataaaactacagttagctgaaaataattttgccttcattgttttacttgacagATAGACAGGTTTGGACATTTCAAAATATGGCATGGGGCAGGATCTATTTTGGTTGCTGTTTCATTTTCCTCCGTTTTTGGCGGTTGCCTACCTTGCAAAA
















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|116399887|gb|EG442479.1|EG442479
EST:     TCTCTGGTCAAGTTGCTGATGGTTTTGCTACAATCTTCATCGGTGAATTG                         ATTGATAGATTTGGGCATTTCAAAATTTGGCATGCTGCAGGATCCTTATTA
genomic: TCTCTGGTCAAGTTGCTGATGGTTTTGCTACAATCTTCATCGGTGAATTGgtaacttctt ... catatgacagATTGATAGATTTGGGCATTTCAAAATTTGGCATGCTGCAGGATCCTTATTA
EST: gi|116400316|gb|EG442908.1|EG442908
EST:     TCTCTGGTCAAGTTGCTGATGGTTTTGCTACAATCTTCATCGGTGAATTG                         ATTGATAGATTTGGGCATTTCAAAATTTGGCATGCTGCAGGATCCTTATTA
genomic: TCTCTGGTCAAGTTGCTGATGGTTTTGCTACAATCTTCATCGGTGAATTGgtaacttctt ... catatgacagATTGATAGATTTGGGCATTTCAAAATTTGGCATGCTGCAGGATCCTTATTA
EST: gi|116399884|gb|EG442476.1|EG442476
EST:     TCTCTGGTCAAGTTGCTGATGGTTTTGCTACAATCTTCATCGGTGAATTG                         ATTGATAGATTTGGGCATTTCAAAATTTGGCATGCTGCAGGATCCTTATTA
genomic: TCTCTGGTCAAGTTGCTGATGGTTTTGCTACAATCTTCATCGGTGAATTGgtaacttctt ... catatgacagATTGATAGATTTGGGCATTTCAAAATTTGGCATGCTGCAGGATCCTTATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaggtaaatctgagttgatgtaaaatgattttttgttctacttcatatgacagATTGATAGATTTGGGCATTTCAAAATTTGGCATGCTGCAGGATCCTTATTAGTTGCTATCTCATTTTCCTCTGTTTTTGGCGGTTGTTTGCCTTGTTCAC
              agttgat  putative branch site (score: 5)
                              ttttttgttctacttc  putative PPT
                   atgtaaaatgattttt  TA-rich tract