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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttctttacaatttgggggtccaatttttgctatatcaaagagattctactgttgcagtacttccattactttgttttgcttctgtagatttaactagctctaatatctggtgtaacctggacttgtatatgaatcgtcgccttggtttttctacttatgtagGGTTGTAGCTACTGCAATTACGTATATGAGACGGGTTTATATCAG

Basic information

species Arabidopsis thaliana
transcript AT5G48640.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G48640.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv00s0360g00050.t01 (Vitis vinifera), 3'ss of exon 3
gttggttctttacaatttgggggtccaatttttgctatatcaaagagattctactgttgcagtactt-ccattactttgttttgcttctgtagatttaactagctctaatatctggtgtaacctggacttgtatatgaatcgtcgcct-tggtttttctacttatgt-agGGTTGTAGCTACTGCAATTACGTATATGAGACGGGTTTATATCAG
                                                               | ||   ||||   ||    || | |||     |   || |  |    | || |  | | | ||  |  | |  ||  |  |    ||   | |||| | || | ||||||||||||||||| ||||| ||||||||||| ||||| | |||
---------------------------------------------------------------atttattattatcatgaaaagcctttgt-----tgtataccctttgcctatgat-caccgttgatatcaaca-aaacagcagttaatgcaatctctaataatttcagGGTTGTAGCTACTGCCATTACATATATGAGACGTGTTTACACCAG
















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|86054344|gb|DR350101.1|DR350101
EST:     ATATTATGAAATTGGCTCAGCACATTAAAGTGAGGCAAAG                         GGTTGTAGCTACTGCAATTACGTATATGAGACGGGTTTATATCAG
genomic: ATATTATGAAATTGGCTCAGCACATTAAAGTGAGGCAAAGgttggttctt ... acttatgtagGGTTGTAGCTACTGCAATTACGTATATGAGACGGGTTTATATCAG
EST: gi|86086425|gb|DR382184.1|DR382184
EST:     ATATTATGAAATTGGCTCAGCACATTAAAGTGAGGCAAAG                         GGTTGTAGCTACTGCAATTACGTATATGAGACGGGTTTATATCAG
genomic: ATATTATGAAATTGGCTCAGCACATTAAAGTGAGGCAAAGgttggttctt ... acttatgtagGGTTGTAGCTACTGCAATTACGTATATGAGACGGGTTTATATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgtaacctggacttgtatatgaatcgtcgccttggtttttctacttatgtagGGTTGTAGCTACTGCAATTACGTATATGAGACGGGTTTATATCAG
  gtgtaac  putative branch site (score: 3)
                                      tttttctactt  putative PPT
                  tatatgaat  TA-rich tract