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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatcatgagtcgtatttgttggaattttttttttgtttgctaatgagtttttttttgtatttttaatcttgtagTGGTGACCACACTGTAAAAATTATTGATTGTGAGACAGGAAAATGCTTAAAAATATTGACTGGCCATCGAAGGACACCCTGGGTG

Basic information

species Arabidopsis thaliana
transcript AT1G04140.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G04140.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 3
-----------gtaagtatcatgagtcgtatttgttggaattttttttttgtttgctaatgagtttttttttgtatttttaatcttgtagTGGTGACCACACTGTAAAAATTATTGATTGTGAGACAGGAAAATGCTTAAAAATATTGACTGGCCATCGAAGGACACCCTGGGTG
            ||  |    |      || |  || |||| | |    | ||||  | ||| | || || ||| || |      || |||||||||||||| ||||| || ||||||||||| || ||||  ||||||||  | ||   ||| ||| | || || || ||||||
gtaagttttaactagttgatctcctctttactaatttgaatctatgaact-tttgtgattgaatcttgttatgtgttatg-----tgcagTGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAAGGTGTTAGTTGGTCATAGGAGAACGCCTTGGGTG

upper sequence: AT1G04140.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------------gtaagtatcatgagtcgtatttgttggaattttttt--tttgtttgctaatgagtttttttttgtatttttaatcttgtagTGGTGACCACACTGTAAAAATTATTGATTGTGAGACAGGAAAATGCTTAAAAATATTGACTGGCCATCGAAGGACACCCTGGGTG
                                          |  | |     ||| | ||| |  | | || | |     |  | ||||      |    |  |||||   | ||   |||||||||||||||||||| || ||||||||  | || ||||  ||||||||  | || ||||| |||||||||||||| ||||||
gtaaattttaacttgtcttttcttttcttttctctattttacatttttgcaccgtcttttttatccgtaattatgtagccaggcttctaactgtactccaatcctatttcata-ctcacagTGGTGACCACACTGTAAAGATAATTGATTGCCATACTGGAAGCTGCTTAAAGGTGTTAACTGGTCATCGAAGGACACCTTGGGTG
















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|116443186|gb|EG485778.1|EG485778
EST:     GCGATTGCAGCAGCTTTTAGTTCAGATGGAAGAACTCTTGCTTCTACACA                         TGGTGACCACACTGTAAAAATTATTGATTGTGAGACAGGAAAATGCTTAAA
genomic: ACGATTGCAGCAGCTTTTAGTTCAGATGGAAGAACTCTTGCTTCTACACAgtaagtatca ... aatcttgtagTGGTGACCACACTGTAAAAATTATTGATTGTGAGACAGGAAAATGCTTAAA
EST: gi|86085412|gb|DR381171.1|DR381171
EST:     ACGATTGCAGCAGCTTTTAGTTCAGATGGAAGAACTCTTGCTTCTACACA                         TGGTGACCACACTGTAAAAATTATTGATTGTGAGACAGGAAAATGCTTAAA
genomic: ACGATTGCAGCAGCTTTTAGTTCAGATGGAAGAACTCTTGCTTCTACACAgtaagtatca ... aatcttgtagTGGTGACCACACTGTAAAAATTATTGATTGTGAGACAGGAAAATGCTTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaattttttttttgtttgctaatgagtttttttttgtatttttaatcttgtagTGGTGACCACACTGTAAAAATTATTGATTGTGAGACAGGAAAATGCTTAAAAATATTGACTGGCCATCGAAGGACACCCTGGGTG
                     taatgagttttttttt  TA-rich tract