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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacacaaatcgattctgactgcaaaaccaaagtttcttgattatttgattatcggaatatgctgcttcaattcccaatcatgtgttctttgtatctttcagGTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGTTTTTCGATCCTTCTCGTGCAAAAGAGTTTCTTTTCATTTCTGGAACAAAG

Basic information

species Arabidopsis thaliana
transcript AT1G19920.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G19920.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv18s0001g14010.t01 (Vitis vinifera), 3'ss of exon 3
---gtaacacaaatcgattctgactgcaaaac-caaagtttcttgattatttgattatcggaatatgctgcttcaattcccaatcatgtgttctttgtatctttcagGTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGTTTTTCGATCCTTCTCGTGCAAAAGAGTTTCTTTTCATTTCTGGAACAAAG
   ||  |    ||   |  | |||  || || || |   | || |||||    ||   | |||       || |  | | ||        |  || ||   | ||||||||||| || || ||| | |  ||||||||||| ||||| |||||||| ||||| || || ||||| |||||||| ||||| |||
aaggttccttccattattgttaacttgaagacgcacatcatttttattatgcttttcctgcaatgaatccattaatcttctaac-------ttattatactatgcagGTTGCAGCATATGACACAGTGGGAAAGAAGATGGCCTTTTTTGATCCTTCACGTGCTAAGGATTTTCTCTTCATTTCAGGAACCAAG
















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|86077601|gb|DR373358.1|DR373358
EST:     TCTTAAGCATGGCCCCTGGACTTGAGAAACTCAATATTCTTCCATTTAGG                         GTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGTTTTTCGATCCTTCT
genomic: TCTTAAGCATGGCCCCTGGACTTGAGAAACTCAATATTCTTCCATTTAGGgtaacacaaa ... tatctttcagGTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGTTTTTCGATCCTTCT
EST: gi|124911494|gb|EH985574.1|EH985574
EST:     CTTAAGCATGGCCCCTGGACTTGAGAAACTCTAATATTCTTCCATTTAGG                         GTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGT
genomic: CTTAAGCATGGCCCCTGGACTTGAGAAACTC-AATATTCTTCCATTTAGGgtaacacaaa ... tatctttcagGTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGT
EST: gi|86034476|gb|DR330229.1|DR330229
EST:     TCTTAAGCATGGCCCCTGGACTTGAGAAACTCAATATTCTTCCATTTAGG                         GTTGCAGCTTACGATACAATCGAGA
genomic: TCTTAAGCATGGCCCCTGGACTTGAGAAACTCAATATTCTTCCATTTAGGgtaacacaaa ... tatctttcagGTTGCAGCTTACGATACAATCGAGA
EST: gi|86034470|gb|DR330223.1|DR330223
EST:     TCTTAAGCATGGCCCCTGGACTTGAGAAACTCAATATTCTTCCATTTAGG                         GTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGTTTTTCGATCCTTCT
genomic: TCTTAAGCATGGCCCCTGGACTTGAGAAACTCAATATTCTTCCATTTAGGgtaacacaaa ... tatctttcagGTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGTTTTTCGATCCTTCT
EST: gi|86034473|gb|DR330226.1|DR330226
EST:     TCTTAAGCATGGCCCCTGGACTTGAGAAACTCAATATTCTTCCATTTAGG                         GTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGTTTTTCGATCCTTCT
genomic: TCTTAAGCATGGCCCCTGGACTTGAGAAACTCAATATTCTTCCATTTAGGgtaacacaaa ... tatctttcagGTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGTTTTTCGATCCTTCT
EST: gi|86034472|gb|DR330225.1|DR330225
EST:     TCTTAAGCATGGCCCCTGGACTTGAGAAACTCAATATTCTTCCATTTAGG                         GTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGTTTTTCGATCCTTCT
genomic: TCTTAAGCATGGCCCCTGGACTTGAGAAACTCAATATTCTTCCATTTAGGgtaacacaaa ... tatctttcagGTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGTTTTTCGATCCTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattatcggaatatgctgcttcaattcccaatcatgtgttctttgtatctttcagGTTGCAGCTTACGATACAATCGAGAAGAAGATGGCGTTTTTCGATCCTTCTCGTGCAAAAGAGTTTCTTTTCATTTCTGGAACAAAG
 atttgat  putative branch site (score: 5)
                                      ttctttgtatctttc  putative PPT
                   ttcaatt  TA-rich tract