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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttgtgtatattcatcttaataagaaatatcactatttatcattttagtgatctcagtggctactgctgataaatattcttaggccacaagaacaacatagattaaaaaaaaacagtacgtaggaacccactgaataagttatttctttcagGGAAGACGTTGGAGTGATGGACTACATCAAGCTGTTGAAGCAAAAGAAGGCTTGCCTATTCAGAATGAATCTATTACTCTGGCGTCAATTAGTTATCAAA

Basic information

species Arabidopsis thaliana
transcript AT4G01800.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os01g21820.1 (Oryza sativa), 3'ss of exon 5
gtacttgtgtatattcatcttaataagaaatatcactatttatcattttagtgatctcagtggctactgctgataaatattctta-ggccacaagaacaacatagattaaaaaaaaacagtacgtaggaacc-cactgaataagttatttcttt-cagGGAAGACGTTGGAGTGATGGACTACATCAAGCTGTTGAAGCAAAAGAAGGCTTGCCTATTCAGAATGAATCTATTACTCTGGCGTCAATTAGTTATCAAA
                                                           ||    |    |  | | ||||  |   | ||     |     | | | || |   | |      |||    | |  |  | | ||||  | ||  ||||| ||| | ||||||||||| || || |||||  ||||||| ||||||||  | ||||| || |||||| | ||||| || |||||||| |||||||| |
----------------------------------------------------------tgtttgcatcattcttcattatttctgcagtcatggttatctttttgttcaatatctatcttagtttagttttcacttttcagatgttaccttttggcagGGCAGAAGATGGAGTGATGGTCTTCACCAAGCAATTGAAGCTAAAGAAGGTGTACCTATACAAAATGAAACAATTACCCTTGCGTCAATAAGTTATCAGA

upper sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 7
gtacttgtgtatattcatcttaataagaaatatcactatttatcattttagtgatctcagtggctactgctgataaatattcttaggccacaagaacaacatagattaaaaaaaaacagtacgtaggaacccactgaataagttatttctttcagGGAAGACGTTGGAGTGATGGACTACATCAAGCTGTTGAAGCAAAAGAAGGCTTGCCTATTCAGAATGAATCTATTACTCTGGCGTCAATTAGTTATCAAA
                                            ||| | ||  |||  | ||  | | ||| |   ||||||| ||  |       ||||   || | | ||  |  ||  |||  || |  ||   |   |||||| |   ||||||| || ||||| |||||||| || || || ||||||||||||||||| ||||| ||||| |||||| || | || || || ||||| |||||||| |
------------------------------------------atattgttgtattctttggggaaa-tactgtt--ctattctttggtga-------aacaccaatgatataaggagggttggtaataatc--ctagcttgtttattt-tgatagGGAAGGCGATGGAGCGATGGACTTCACCAGGCGGTTGAAGCAAAAGAAGGGTTGCCCATTCAAAATGAAACTGTGACGCTAGCCTCAATCAGTTATCAGA
















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|125004226|gb|EL076495.1|EL076495
EST:     GGAGGTTCTTATCGTGGATGAGTTTACTGGTCGTTGTTAATGCAG                         GGAAGACGTTGGAGTGATGGACTACATCAAGCTGTTGAAGCAAAAGAAGG
genomic: GGAGGTTCTTATCGTGGATGAGTTTACTGGTCG-TG-TAATGCAGgtacttgtgt ... tttctttcagGGAAGACGTTGGAGTGATGGACTACATCAAGCTGTTGAAGCAAAAGAAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagattaaaaaaaaacagtacgtaggaacccactgaataagttatttctttcagGGAAGACGTTGGAGTGATGGACTACATCAAGCTGTTGAAGCAAAAGAAGGCTTGCCTATTCAGAATGAATCTATTACTCTGGCGTCAATTAGTTATCAAA
                                          ttatttctttc  CT-rich tract
     ttaaaaaaaaacagta  TA-rich tract