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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaatcttaagcttctctctctcttttcataatttccggtttaagtttttgatatttgattctttaattcggtttatcttttgacagTACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAACTTCGGTTAGATTTTTCAGAGATTTACTCGTTAATTAATAATGTTATGTTGGTTC

Basic information

species Arabidopsis thaliana
transcript AT1G54100.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G54100.2 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os09g26880.3 (Oryza sativa), 3'ss of exon 13
------gtaacaatcttaagcttctctctctcttttcataatttcc--ggtttaagtttttgatatttgattctttaattc--ggtttatcttttgacagTACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAACTTCGGTTAGATT--TTTCAGAGATTTACTCGTTAATTAATAATGTTATGTTGGTTC
      ||    | | |   |      || |   |  ||||||      |||  |||| |  || |      |  ||||||    |  |  |||   |||||| ||||||||||||| |||| | |||||||| |||||||| || || || ||| |   |     ||||   ||  | ||    | | | |   | |    
tagtgtgtgttcaccatgctcgaaatactttgcatagataattctttatgttatagttatgcatttcctgcacactaattctcaatccaaatttctgcagTACGATCAACTATGGAAGCGAGCTGCCTCTAGCACAAGGAATAAATTTTGGCTAGTTCGGTGGTCAAGATCGGCTGATGAACATGTTAAGCTTCATCGAC--
















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|86080345|gb|DR376102.1|DR376102
EST:     CGTGAAGCTGGAAGCGACTCATGGAAACAGTACATGCGTCGATCGACTTG                         TACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAACTTCGG
genomic: CGTGAAGCTGGAAGCGACTCATGGAAACAGTACATGCGTCGATCGACTTGgtaacaatct ... cttttgacagTACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAACTTCGG
EST: gi|86080922|gb|DR376679.1|DR376679
EST:     CGTGAAGCTGGAAGCGACTCATGGAAACAGTACATGCGTCGATCGACTTG                         TACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAACTTCGG
genomic: CGTGAAGCTGGAAGCGACTCATGGAAACAGTACATGCGTCGATCGACTTGgtaacaatct ... cttttgacagTACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAACTTCGG
EST: gi|116414405|gb|EG456997.1|EG456997
EST:     CGTGAAGCTGGAAGCGACTCATGGAAACAGTACATGCGTCGATCGACTTG                         TCCCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAACTTCGG
genomic: CGTGAAGCTGGAAGCGACTCATGGAAACAGTACATGCGTCGATCGACTTGgtaacaatct ... cttttgacagTACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAACTTCGG
EST: gi|124915717|gb|EH989591.1|EH989591
EST:     TGGAAGCGACTCATGGAAACAGTACATGCGTCGATCGACTTG                         TACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAA
genomic: TGGAAGCGACTCATGGAAACAGTACATGCGTCGATCGACTTGgtaacaatct ... cttttgacagTACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAA
EST: gi|222357912|gb|GH718553.1|GH718553
EST:     CGTGAAGCTGGAAGCGACTCATGGAAACAGTACATGCGTCGATCGACTTG                         TACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAACTTCGG
genomic: CGTGAAGCTGGAAGCGACTCATGGAAACAGTACATGCGTCGATCGACTTGgtaacaatct ... cttttgacagTACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAACTTCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttccggtttaagtttttgatatttgattctttaattcggtttatcttttgacagTACCATCAACTATGGAAACGAGTTACCTCTAGCGCAAGGAATTAACTTCGGTTAGATTTTTCAGAGATTTACTCGTTAATTAATAATGTTATGTTGGTTC
                             ctttaat  putative branch site (score: 4)
                                        tttatctttt  putative PPT
       tttaagtttttgatat  TA-rich tract