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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacacatttgatttgatttgtcataaatttctactgttttagaatccagatcgaatcttcacggaatcttgaatattccaaatcgaatcttgattctgatatctttttggctttgaagGAACTGGAATAGATAAACCGGATTATTTGGCGACGGTGGATGTAGATCCAAGCTCGCCTTCGTATTCAAGTGTTATTCATAGATTACCAATGCCTTTTGT

Basic information

species Arabidopsis thaliana
transcript AT4G14030.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G14030.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv05s0029g00240.t01 (Vitis vinifera), 3'ss of exon 1
gtacacatttgatttgatttgtcataaatttctactgttttagaatccagatcgaatcttcacggaatcttgaatattccaaatcgaatcttgattctgatatctttttggctttgaagGAACTGGAATAGATAAACCGGATTATTTGGCGACGGTGGATGTAGATCCAAGCTCGCCTTCGTATTCAAGTGTTATTCATAGATTACCAATGCCTTTTGT
             || | |       |  | || ||   | ||    ||       ||||  | |  || | |  |||      |  |  |   |||| ||   |   |   | || |||| | |||| ||  || || || ||  | || || |||||||||||||||||||| ||||| |||||||  ||||| ||  |  | ||  | |||| | |
-------------ttaactaacgcccatgtgcttctccatcagg--tcatgctccttcttagctg--tcctcacaattttgggcc--acttcccttctaatggttcaattcttatgcagGATCAGGAAAAGGGAAGCCTGACTACCTTGCTACAGTGGATGTAGATCCAAGCTCACCTTCTTATTCAAAAGTTATCCACCGGCTTCCTGTACCTTATTT
















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|47830214|gb|CK119898.1|CK119898
EST:     TATGTCTGGTCCATCGGAGAAACTTATCTACGTCACCGCCGTCTACACCG                         GAACTGGAATAGATAAACCGGATTATTTGGCGACGGTGGATGTAGATCCAA
genomic: TATGTCTGGTCCATCGGAGAAACTTATCTACGTAACCGCCGTCTACACCGgtacacattt ... ggctttgaagGAACTGGAATAGATAAACCGGATTATTTGGCGACGGTGGATGTAGATCCAA
EST: gi|125305443|gb|EL319528.1|EL319528
EST:     ATGTCTGGTCCATCGGAAGAAACTTATCTACGTAACCGCCGTCTACACCG                         GAACTGGAATAGA
genomic: ATGTCTGGTCCATCGGA-GAAACTTATCTACGTAACCGCCGTCTACACCGgtacacattt ... ggctttgaagGAACTGGAATAGA
EST: gi|125253658|gb|EL267743.1|EL267743
EST:     ATGTCTGGTCCATCGGAGAAACTTATACTACGTAACCGCCGTCTACACCG                         GAACTGGAATAGA
genomic: ATGTCTGGTCCATCGGAGAAACTTAT-CTACGTAACCGCCGTCTACACCGgtacacattt ... ggctttgaagGAACTGGAATAGA
EST: gi|125081475|gb|EL142685.1|EL142685
EST:     TATGTCTGGTCCATCGGAGAAACTTATCTACGTAACCGCCGTCTACACCG                         GAACTGGAATAGA
genomic: TATGTCTGGTCCATCGGAGAAACTTATCTACGTAACCGCCGTCTACACCGgtacacattt ... ggctttgaagGAACTGGAATAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatcttgaatattccaaatcgaatcttgattctgatatctttttggctttgaagGAACTGGAATAGATAAACCGGATTATTTGGCGACGGTGGATGTAGATCCAAGCTCGCCTTCGTATTCAAGTGTTATTCATAGATTACCAATGCCTTTTGT
                              ttctgat  putative branch site (score: 3)
                                      tctttttg  CT-rich tract
                                   atatcttttt  TA-rich tract