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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcctcgtcttttgctacaacatacaattgtttcctcctcatataatccgtgttttgtgactaagattgtctctgttgatgcagGTGTAGTTCGAGTTTTCTATGGGTCAGATTTTGTTACTGTAACAAAGTCAGATGATGTAACATGGGATATACTCAAGCCTGATATCTTTGCAGTGGTAAT

Basic information

species Arabidopsis thaliana
transcript AT1G51390.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51390.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv13s0106g00620.t01 (Vitis vinifera), 3'ss of exon 2
-gtattcctcgtcttttgctacaacatacaattgtttcctcctcatataatccgtgttttgt--gactaagattgt--------ctctgttga--tgcagGTGTAGTTCGAGTTTTCTATGGGTCAGATTTTGTTACTGTAACAAAGTCAGATGATGTAACATGGGATATACTCAAGCCTGATATCTTTGCAGTGGTAAT
   || |  |    ||  || |||  |  | || ||   |  |  | |     ||  || |   |||||| |||||        ||||  ||   | ||||  |   |||||||||||  || ||||||||| | ||||||||||||||||||||||   | |||||| |  | || ||||| || ||||| |   | ||
cagatgcaactaagttctcttcaagctcaattttttcaatatttgttttgattgttgttagcaagactaacattgtaggctctcctcttctgtctttcagGAATTACTCGAGTTTTCTTCGGATCAGATTTTATAACTGTAACAAAGTCAGATGATGCTTCTTGGGATTTTATAAAACCTGAAATTTTTGCTGCAATCAT
















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|86072555|gb|DR368312.1|DR368312
EST:     TCGTTCTGCTATGAGTTCACCTTTAGCTAAAGCCATTTTCGCCATTGATG                         GTGTAGTTCGAGTTTTCTATGGGTCAGATTTTGTTACTGTAACAAAGTCAG
genomic: TCGCTCTGCTATGAGTTCACCTTTAGCTAAAGCCATTTTCGCCATTGATGgtattcctcg ... gttgatgcagGTGTAGTTCGAGTTTTCTATGGGTCAGATTTTGTTACTGTAACAAAGTCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcctcctcatataatccgtgttttgtgactaagattgtctctgttgatgcagGTGTAGTTCGAGTTTTCTATGGGTCAGATTTTGTTACTGTAACAAAGTCAGATGATGTAACATGGGATATACTCAAGCCTGATATCTTTGCAGTGGTAAT
                                            tgttgat  putative branch site (score: 4)
                                        tctctgtt  CT-rich tract
         tcatataat  TA-rich tract