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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttagatgcatcgtacatacatatttccgacgattcctccgatgtgtccctcaatgagaaggcgagatcatagattctccgtgtgcattttgttttgttttgagcatcatgcgtgatttgacatctttgtttcgatttctgtaaatcttttggacttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGGAAGCATTTCCAGTGTACAACAAAACTCACATGATTTGCCTTGAAATGCC

Basic information

species Arabidopsis thaliana
transcript AT3G05520.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G05520.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv14s0060g02220.t01 (Vitis vinifera), 3'ss of exon 1
gtacttagatgcatcgtacatacatatttccgacgattcctccgatgtgtccctcaatgagaaggcgagatcatagattctccgtgtgcattttgttttgttttgagcatcatgcgtgatttgacatctttgtttcgatttctgtaaatcttttggacttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGGAAGCATTTCCAGTGTACAACAAAACTCACATGATTTGCCTTGAAATGCC
                        |  || |   | |||  |  |||  ||       || |           | |||||||| |  | |||  |||||  | || |  | ||  |||  | |   | ||||| |                    || |  |  |||||||     |||| |||||||| ||||| ||||| ||||| || |||  ||| || |||||  ||||||||||| |||||||||||||||| ||||||||
---------------------gtgttctttctctgtttctacgaatgcatcttctg--gaaactcatttgctcttgattctcc-ttcggattaggtttt--tctgcgtttgataagtggatcgggttttttgtgt--------------------gattgtttgcagATTTGCGATCGGTGTTGAGCGACGAGGATGTGTATAATGAGGCGGCCTCGGAGGCGTTTCCTTTGTACAACAAATCTCACATGATTTGCCTCGAAATGCC
















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|86039969|gb|DR335724.1|DR335724
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|86039958|gb|DR335713.1|DR335713
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|86039968|gb|DR335723.1|DR335723
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|86039957|gb|DR335712.1|DR335712
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|86039966|gb|DR335721.1|DR335721
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|86039961|gb|DR335716.1|DR335716
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|19878114|gb|AU238945.1|AU238945
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|116467036|gb|EG509628.1|EG509628
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|86039964|gb|DR335719.1|DR335719
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|86039965|gb|DR335720.1|DR335720
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|86039959|gb|DR335714.1|DR335714
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|86039962|gb|DR335717.1|DR335717
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|86039967|gb|DR335722.1|DR335722
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
EST: gi|86039960|gb|DR335715.1|DR335715
EST:     GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAG                         ATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG
genomic: GTGGTTTTTCCTCAACGCTCCCGCTGGAGAAATCAATTACGTCGCTAAAGgtacttagat ... cttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcgtgatttgacatctttgtttcgatttctgtaaatcttttggacttctgacagATTTAAAGGCGGTTTTGAGCGATGAGGAAGTGTACAATGAAGCAGCCATGGAAGCATTTCCAGTGTACAACAAAACTCACATGATTTGCCTTGAAATGCC
      atttgac  putative branch site (score: 4)
                                             cttct  putative PPT
                                taaatctttt  TA-rich tract