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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcctaattcctacatatttttttgatgaaattcacgcttatcgtttttgattcacatgtttactgttgtcaatttaaacaacagAAAGCTTGTCCTGCCATCTTTTGCTACCCTTCCACTTTTGATGGCTTATGCTGGTCATACAACTATTGTTATACCAAAACCTCTTGTTGCTTATATTGGC

Basic information

species Arabidopsis thaliana
transcript AT2G41490.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G41490.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------------------gtaagtcctaattcctaca----tattt--ttttgatgaaattcacgcttatcgtttt--tgattcacatgtttac-tgttgtcaatttaaacaacagAAAGCTTGTCCTGCCATCTTTTGCTACCCTTCCACTTTTGATGGCTTATGCTGGTCATACAACTATTGTTATACCAAAACCTCTTGTTGCTTATATTGGC
                                          ||| ||  || | ||    |||||  |||  |  | ||  ||  || | ||| |  |||   | ||  |||  ||     ||||   | ||||| ||  |  |  ||||||| |||||| | ||||| || ||||||||||||||||| ||||| |||||  |||||||||| |||||  |  | ||  |||| 
gtgagtatttggtcattttcaaaggttttctgatttcctagggtcatatatcttgcagagatatttaatttccactacatagacttttgtagttgtgctgaaatagatccttatgtgactgtaattctgaaaacagGAAATTAATATTGCCATCATTTGCTGCTCTTCCCCTGTTGATGGCTTATGCTGGCCATACCACTATAATTATACCAAAGCCTCTCATCCCATACGTTGGG
















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|124858332|gb|EH942769.1|EH942769
EST:     TGATGTGCCTTGGAGAGT                         AAAGCTTGTTCCTGCCATCTTTTGCTACCCTTCCACT
genomic: TGATGTGCCTTGGAGAGTgtaagtccta ... taaacaacagAAAGCTTG-TCCTGCCATCTTTTGCTACCCTTCCACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcacgcttatcgtttttgattcacatgtttactgttgtcaatttaaacaacagAAAGCTTGTCCTGCCATCTTTTGCTACCCTTCCACTTTTGATGGCTTATGCTGGTCATACAACTATTGTTATACCAAAACCTCTTGTTGCTTATATTGGC
               ttttgat  putative branch site (score: 4)
                                         aatttaaacaa  TA-rich tract