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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttgttcttctacttttttgtttctaccgccattctatctatctgtgatgtattagttatgtgaactaaaacaacaggaatgattttctatgcctccaatttcaaagttttgactgcaacgtccatatcaatatagaattcccatggggagaaataaatcttatggactttgatgtctcatagcagTGTCCTTTAGAAAGTTTGGAGCTCGATCTTGCACATTATGAAGTTCCTGCTCCTGCGCCTTCTGCAAACTCGTACCTTGTTTATGCGGCGGACAATGCAG

Basic information

species Arabidopsis thaliana
transcript AT1G07110.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 3
gtactttgttcttctacttttttgtttctaccgccattctatctatctgtgatgtattagttatgtgaactaaaacaacaggaatgattttctatgcctccaatttcaaagttttgactgcaacgtccatatcaatatagaattcccatggggagaaataaatcttatggactttgatgtctcatagcagTGTCCTTTAGAAAGTTTGGAGCTCGATCTTGCACATTATGAAGTTCCTGCTCCTGCGCCTTCTGCAAACTCGTACCTTGTTTATGCGGCGGACAATGCAG
                                                                           | | ||  ||  ||| |||     | | ||| ||    | |     ||     || ||  |   |  || | ||     ||| ||||         | ||  |  | || || |  |  ||| || |||  ||||||| ||||||| ||||||||  ||||||||||||||  |||||||||| ||    || |||||||| ||  |||  |   
---------------------------------------------------------------------------ccaaagacattgtttactag----ctagttttaataggtggttctaaa-----atttcggt---ggtttactatattttgaattaaaatcctgctccattttttccccacagAATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGTTCCTGCTCCTGCAACTTCTGCAAATTCAGGTCTGGTTTATGCAGCTAACATGG---
















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|116416223|gb|EG458815.1|EG458815
EST:     TACGTGGAATTCCTGATGTCAGCATTAATCCTGATCCAAAATCTGCTGAG                         TGTCCTTTAGAAAGTTTGGAGCTCGATCTTGCACATTATGAAGTTCCTGCT
genomic: TACGTGGAATTCCTGATGTCAGCATTAATCCTGATCCAAAATCTGCTGAGgtactttgtt ... ctcatagcagTGTCCTTTAGAAAGTTTGGAGCTCGATCTTGCACATTATGAAGTTCCTGCT
EST: gi|125320388|gb|EL334473.1|EL334473
EST:     AATTCCTGATGTCAGCATTAATCCTGATCCAAAATCTGCTGAG                         TGTCCTTTAGAAAGTTTGGAGCTCGATCTTGCACATTATGAAGTTCCTGC
genomic: AATTCCTGATGTCAGCATTAATCCTGATCCAAAATCTGCTGAGgtactttgtt ... ctcatagcagTGTCCTTTAGAAAGTTTGGAGCTCGATCTTGCACATTATGAAGTTCCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatagaattcccatggggagaaataaatcttatggactttgatgtctcatagcagTGTCCTTTAGAAAGTTTGGAGCTCGATCTTGCACATTATGAAGTTCCTGCTCCTGCGCCTTCTGCAAACTCGTACCTTGTTTATGCGGCGGACAATGCAG
                                    ctttgat  putative branch site (score: 5)
                  agaaataaatcttat  TA-rich tract