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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagaatgataacctgttcttcttctcatctgtactactatttgtgttctctaaattttctgaaatactttttgcagATAAGTTTCTCGGATTGGTTCCTGTCAAAAGGTGGGACACGGGCAAGTATCCAGAGAATGTGGGATCCTGTTGCTTATGCTCTAGGTTTCATAGACTGCG

Basic information

species Arabidopsis thaliana
transcript AT3G04870.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G04870.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os07g10490.1 (Oryza sativa), 3'ss of exon 6
--------------gtaaagaatgataacctgttcttcttc-----tcatctgtac-tactatttgtgttctc-taaattttctgaaatactttttgcagATAAGTTTCTCGGATTGGTTCCTGTCAAAAGGTGGGACACGGGCAAGTATCCAGAGAATGTGGGATCCTGTTGCTTATGCTCTAGGTTTCATAGACTGCG
               |||| |  |   | ||||| ||  |      |||   |||  ||   | | | |     | ||||| |     |||||||| ||| ||||||||   ||||||||| |||| |||||||| || || |  || |||   || ||||||||||||||||| |||||||| |||||||| ||||| |
taaacatatgcactataaatatcgtagaactgttattaatgaaaaatcagaggtagatagcttctatctaaaggttaatttgcaagtgtacttttttcagGTAAGTTTCAGCGATTGGTTCTTGTCGAAAGGTGGTACTCGAGAGAGCATCACAAGGATGTGGGATCCTGTTGCCTATGCTCTTGGTTTCATTGACTGTG

upper sequence: AT3G04870.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G454952_T01 (Zea mays), 3'ss of exon 6
----------------------------------------------------------------------------------------------gtaaagaa-tgataacctgttcttcttctcatctgtactactatttgtgttctctaaattttctgaaatactttttgcagATAAGTTTCTCGGATTGGTTCCTGTCAAAAGGTGGGACACGGGCAAGTATCCAGAGAATGTGGGATCCTGTTGCTTATGCTCTAGGTTTCATAGACTGCG
                                                                                               |||     |||||||      || |    || |    | |         ||  ||| |||  |  ||  | |||  ||| ||||||||   ||||||||| |||| ||||| || || ||||  ||||||   ||||||||||||||||||||||| ||| | |||||||| ||||| |
gtaagtatcccttgcttttatttcatatccattaagagtgtgcatcaagagcattcatttgcaatagtcagtatcttttcaaaatgtttttgttctaactcgctgataactaaactttttgtcaattttctttccctcaaacactcgttaattttattttaacccattt--cagGTAAGTTTCAGTGATTGGTTCATGTCCAAAGGGGGTACTCGGGAGAGTATCACAAGAATGTGGGATCCTGTTGCTTACGCTTTGGGTTTCATTGACTGTG

upper sequence: AT3G04870.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 6
-----------------------gtaaagaatgataacctgttcttcttctcatctgtac-tactatttgtgttctctaaattttctgaaatactttttgcagATAAGTTTCTCGGATTGGTTCCTGTCAAAAGGTGGGACACGGGCAAGTATCCAGAGAATGTGGGATCCTGTTGCTTATGCTCTAGGTTTCATAGACTGCG
                       ||| |   ||||    |  |||  || | | |  ||  || |  |||| ||   |||| | ||  |  |  ||| | |||||||| ||||| |||||||||||||| ||||||||||||||    || |||||||||||||||||||||||||||||||| || || || || ||||| |
atagttatcccagtctactttatgtacatg-tgatgtggttatctggttatgaaccttatgtaattgttgtcttacttaaaatctc--atttgttttatacagATAAGCTTCTCTGATTGGTTCCTGTCCAAAGGTGGGACACGCATGAGCATCCAGAGAATGTGGGATCCTGTTGCTTATGCCCTCGGGTTTATTGACTGTG

upper sequence: AT3G04870.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S211_145V6.1 (Physcomitrella patens), 3'ss of exon 6
---------------------gtaaagaatgataacc-tgttcttcttctcatctgtactactatttgtgttctctaaattttctgaaatactttttgcagATAAGTTTCTCGGATTGGTTCCTGTCAAAAGGTGGGACACGGGCAAGTATCCAGAGAATGTGGGATCCTGTTGCTTATGCTCTAGGTTTCATAGACTGCG
                      |||  || |  ||   | | |||||| |     |  |||   |||  |     | | |  | |   |   |||  |||| | || ||  | |||||||   ||||  | |||||| | ||    || ||| | ||  ||||| | ||||||||||||||||| |||||||||||||| |
gtagttaaccatcgaaaactcttaagaaacggaaaggatctgcttcttttttcaaggcctaaagtttaagaagcattagtgatttatgacgatttg-gcagGTGAGCTTTACAGATTGGTATATGTCTCATGGTGGGTCTCGCATGAGCATCAAAAGGTTGTGGAACCCTGTTGCTTATGCTCTGGGTTTCATAGACTGTG

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|86024807|gb|DR320560.1|DR320560
EST:     CTCTTGTCGACCCCGATGGAGCAATGAGAGACATTCGCAACCTTGACAGC                         ATAAGTTTCTCGGATTGGTTCCTGTCAAAAGGTGGGACACGGGCAAGTATC
genomic: CTCTTGTCGACCCCGATGGAGCAATGAGAGACATTCGCAACCTTGACAGCgtaaagaatg ... ctttttgcagATAAGTTTCTCGGATTGGTTCCTGTCAAAAGGTGGGACACGGGCAAGTATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcatctgtactactatttgtgttctctaaattttctgaaatactttttgcagATAAGTTTCTCGGATTGGTTCCTGTCAAAAGGTGGGACACGGGCAAGTATCCAGAGAATGTGGGATCCTGTTGCTTATGCTCTAGGTTTCATAGACTGCG
                          ctctaaa  putative branch site (score: 3)
                                           tacttttt  putative PPT
                             taaattttctgaaata  TA-rich tract