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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAGCTACAGATAAATGCATAATGGCGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAGgtaaccattgcactctccaacttttctcattacggcccaaataaagctatgattccttaagcaagttttaacactgcttaaataaaaacacag

Basic information

species Arabidopsis thaliana
transcript AT1G48240.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G48240.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os07g44350.1 (Oryza sativa), 5'ss of exon 9
GTAGCTACAGATAAATGCATAATGGCGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAGgtaaccattg--cactctc-caacttttctcattacggcccaaataaa-gctatgattccttaag-caagttttaacactgc-ttaaataaaaacacag-
|| || || || |||||||| ||||| ||||| |||||||| ||||||||||| || || || ||  |||| ||||||    ||     || |  ||| | | | |||   |       ||   |  || | |  || ||  ||    | |  ||   |       |    ||  
GTTGCAACTGACAAATGCATCATGGCATTCCTATTTCTGATAGTCTGTGGTGTGATTGCAATCATTGTTGTTAAGgtatgttttaattgcttttgcaaatgtacccatgttgtttaccttaggtgacatcacttgttgagataaaaactgatcctatatcctccgtatgtgcaag

upper sequence: AT1G48240.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G000718_T01 (Zea mays), 5'ss of exon 9
GTAGCTACAGATAAATGCATAATGGCGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAGgtaaccattgcactctccaa--------cttttctcattacg-gcccaaataaagcta-tgattccttaagcaagttttaacactgcttaaataaaaacacag
|| ||||| || |||||||| |||||||||||||||||||||||||||||||| || || |||||  |||| ||||||        |||||   |           |  | |||  | ||| ||||||   ||   || | |   |     ||||  |||    ||||    ||||  
GTTGCTACTGACAAATGCATTATGGCGTTCCTGTTTCTGATTGTCTGTGGTGTCATTGCAATAATTGTTGTTAAGgtatgttgccgactctgtgaaggcgtcgtcgtatttattgtgtgcctaaataagattagctatgcttggtgtttagtttaggactaga-aaatctctacac--

upper sequence: AT1G48240.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G102903_T02 (Zea mays), 5'ss of exon 9
GTAGCTACAGATAAATGCATAATGGCGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAGgtaaccattgcactctccaacttttctcattacggcccaaat-----aaagctatgattccttaagca-agttttaacactgcttaaataaaaacacag---
|| ||||| || |||||||| ||||||||||||||||||||||||||||| ||||| || |||||  |||| ||||||    ||||   |||| |    |  || |      |   |     || |     |  | |   ||  |||||    || |  |    | |   ||     
GTTGCTACTGACAAATGCATTATGGCGTTCCTGTTTCTGATTGTCTGTGGCGTTATTGCAATAATTGTTGTTAAGgtag--gttgccgactccgaagggtagcactgtatttcttttgcgccaaggtggctacgcttggtgcgtagtttaggaacagaatctccacatctacgagta

upper sequence: AT1G48240.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G170191_T01 (Zea mays), 5'ss of exon 3
GTAGCTACAGATAAATGCATAATGGCGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAGgtaaccattgcactctccaacttttctcattacggcccaaat-----aaagctatgattccttaagca-agttttaacactgcttaaataaaaacacag---
|| ||||| || |||||||| ||||||||||||||||||||||||||||| ||||| || |||||  |||| ||||||    ||||   |||| |    |  || |      |   |     || |     |  | |   ||  |||||    || |  |    | |    |     
GTTGCTACTGACAAATGCATTATGGCGTTCCTGTTTCTGATTGTCTGTGGCGTTATTGCAATAATTGTTGTTAAGgtag--gttgccgactccgaagggtagcactgtatttcttttgcgccaaggtggctacgcttggtgcgtagtttaggaacagaatctccacatctgcgagta

upper sequence: AT1G48240.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv05s0020g00750.t01 (Vitis vinifera), 5'ss of exon 9
GTAGCTACAGATAAATGCATAATGGCGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAGgtaaccattgcactctccaacttttctcattacggcccaaataaagctatgat-tccttaagcaa---gttttaacactgcttaaataaaaacacag--------
|| ||||| |||||||||||||||   ||||| ||||| ||||| |||||||| ||||| || |||||||||||||||     || | ||||   | ||| |||||   | ||    |    |   |  | |||||   |   | |||||     ||||||    ||   |         
GTGGCTACGGATAAATGCATAATGCTTTTCCTATTTCTTATTGTGTGTGGTGTAATAGCCATTATCATTGTGAAGgta-----tgtattctctcgcgtttatcatttatgaccttgaacttttgcaacgtgcttaactcacctgctttaattgaacttaaaggtgaaatgaaccccaaac

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|86077216|gb|DR372973.1|DR372973
EST:     CGTYCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAG                         ATCGTGAMCCCAAACAACAAAGACATCAGAGACATCCCTGGACTAGCTCCT
genomic: CGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAGgtaaccattg ... aaaaacacagATCGTGAACCCAAACAACAAAGACATCAGAGACATCCCTGGACTAGCTCCT
EST: gi|164232137|gb|ES150175.1|ES150175
EST:     CGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAG                         ATCGTGAACCCAAACAACAAAGACATCAGAGACATCCCTGGACTAGC
genomic: CGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAGgtaaccattg ... aaaaacacagATCGTGAACCCAAACAACAAAGACATCAGAGACATCCCTGGACTAGC
EST: gi|19797491|gb|AU229297.1|AU229297
EST:     CGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAG                         ATCGTGAACCCAAACAACAAAGACATCAGAGACATCCCTGGAGCTAGCTCC
genomic: CGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAGgtaaccattg ... aaaaacacagATCGTGAACCCAAACAACAAAGACATCAGAGACATCCCTGGA-CTAGCTCC
EST: gi|164031957|gb|ES033888.1|ES033888
EST:     TTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAG                         ATCGTGAAACCCAAACAACAAAGACATCAGAGACATCCCTGGACTAGCTCC
genomic: TTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAGgtaaccattg ... aaaaacacagATCGTGAA-CCCAAACAACAAAGACATCAGAGACATCCCTGGACTAGCTCC
EST: gi|125320794|gb|EL334879.1|EL334879
EST:     TAGCTATAATCATTGTGAAG                         ATCGTGAACCCAAACAACAAAGACATCAGAGACATCCCTGGACTAGCTCCT
genomic: TAGCTATAATCATTGTGAAGgtaaccattg ... aaaaacacagATCGTGAACCCAAACAACAAAGACATCAGAGACATCCCTGGACTAGCTCCT
EST: gi|125197090|gb|EL212044.1|EL212044
EST:     CGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAG                         ATCGTGAACCCAAACAACAAAGACA
genomic: CGTTCCTGTTTCTGATTGTCTGTGGTGTTATAGCTATAATCATTGTGAAGgtaaccattg ... aaaaacacagATCGTGAACCCAAACAACAAAGACA