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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataacataacaaaaaacagggtcctctgtttcatatttgttgggtttgttcttgcaataacactaaacttgcgttgttgcagACTGCTGGACATAAAGACCTTCTTGAAGGAGATCCTTACTTGAAACAGAGACTAAGGCTACGTGACTCTTACATTACGACCCTCAACGTTTGCCAAGCCT

Basic information

species Arabidopsis thaliana
transcript AT3G14940.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G14940.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 11
------gtataacataacaaaaaacagggtcctc--tgtttcatatttgttgggtttgttcttgcaataacactaaacttgcgttgttg--------cagACTGCTGGACATAAAGACCTTCTTGAAGGAGATCCTTACTTGAAACAGAGACTAAGGCTACGTGACTCTTACATTACGACCCTCAACGTTTGCCAAGCCT
        || |      ||||||||   |  ||  |  | |  |  |  ||   || || ||  | ||   ||   |   |  || |         |||  ||||||||| ||||||||||| || ||||||||||||||||  ||||||||  |  | ||||| || ||||| ||  | || || ||||||||||| |
atctccaaattagtgtctaaaaaacatatttatcactagtcccgaactactgatctttttttttaactatatctgcccactcactgctatgtgaactcagGTTGCTGGACACAAAGACCTTCTGGAGGGAGATCCTTACTTGAGGCAGAGACTGCGTATCCGTGATTCCTACATCACAGCGCTGAATGTTTGCCAAGCTT

upper sequence: AT3G14940.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 9
gtataacataacaaaaaacagggtcctctgtttcatatttgttgggtttgttcttgcaataaca--ctaaacttgcgttgttgcagACTGCTGGACATAAAGACCTTCTTGAAGGAGATCCTTACTTGAAACAGAGACTAAGGCTACGTGACTCTTACATTACGACCCTCAACGTTTGCCAAGCCT
|||    |||    |||| |  ||  |   ||     |||    || | |   ||  | | |    || ||  ||  ||  || ||| |||||| |||| ||| ||||| ||||| || || |||||||||||||||||  |||| |||||  | ||||| |||||||| || || |||||||| |
gtactgtataggggaaaa-acagtagttcattg-gggtttccatggctggccttttgagtgatgatcttaatctgtttt-ctgtagATTGCTGGGCATAGAGATCTTCTGGAAGGCGACCCATACTTGAAACAGAGACTCCGGCTTCGTGATGCATACATAACGACCCTTAATGTGTGCCAAGCAT
















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|116421877|gb|EG464469.1|EG464469
EST:     GAGAGAAACTCAGAGCCAACTTTGATGAAACCAAGAACCTCGTCCTCCAG                         ACTGCTGGACATAAAGACCTTCTTGAAGGAGATCCTTACTTGAAACAGAGA
genomic: GAGAGAAACTCAGAGCCAACTTTGATGAAACCAAGAACCTCGTCCTCCAGgtataacata ... gttgttgcagACTGCTGGACATAAAGACCTTCTTGAAGGAGATCCTTACTTGAAACAGAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcatatttgttgggtttgttcttgcaataacactaaacttgcgttgttgcagACTGCTGGACATAAAGACCTTCTTGAAGGAGATCCTTACTTGAAACAGAGACTAAGGCTACGTGACTCTTACATTACGACCCTCAACGTTTGCCAAGCCT
                                 cactaaa  putative branch site (score: 2)
     atatttgtt  TA-rich tract