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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcccttacctaactccttcaatgatcacatagcgataatgttgctaatttcgaagcccttacacttgcaggtaaagCTACGTGTGTGAAGTTTGGTTCAGATGCACAGTACGTTGCAGTCGGTTCGATGGACCGTAACCTACGGATATTTGGTCTTCCTGGTGATGAAAAAGCCAA

Basic information

species Arabidopsis thaliana
transcript AT2G33340.3
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G33340.3 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: LOC_Os10g32880.1 (Oryza sativa), 3'ss of exon 15
------------------gtcccttacctaactccttcaatgatcacatagcgataatgttgctaatttcgaagccct----tacacttg---caggtaaagCTACGTGTGTGAAGTTTGGTTCAGATGCACAGTACGTTGCAGTCGGTTCGATGGACCGTAACCTACGGATATTTGGTCTTCCTGGTGATGAAAAAGCCAA
                  | ||     ||   | | | | ||    |   ||    |  |  ||||||| |   |  |    |||||||    |||| ||||  ||    || ||||||||  | |||||  ||||| |||| || ||||| ||||| |||||||||||||||||||| | ||| || || ||  |      
gttcgtccctttcttatggcccacattctcggttcgtgattggcatctgtgcttgcacttaactaatttggtttctgtggcgtacacttttctcagGGAAAGTGACAAACGTCAAGTTTGGCACCGATGCGAAGTACATTGCCGTAGGTTCTATGGATCGTAACCTACGGATATTTGGGCATCCGGGAGAAGATGA------

upper sequence: AT2G33340.3 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GRMZM2G324540_T01 (Zea mays), 3'ss of exon 17
----------------------gtccctta-cctaactccttcaatgatcacatagcgataatgttgctaatttcgaagcccttacactt--gcaggtaaagCTACGTGTGTGAAGTTTGGTTCAGATGCACAGTACGTTGCAGTCGGTTCGATGGACCGTAACCTACGGATATTTGGTCTTCCTGGTGATGAAAAAGCCAA
                      ||| |||     || | ||||   | ||    ||||   ||     |  | | |   |  ||   |||   |||| ||||  || |  || || || ||   ||| ||  | ||| | ||  | ||||| |||||||| || ||||||||||||||||| ||||| |||||  |      
gtgtgtccctctttttaccatagtctcttggtgcaatttcttcttagttcttggagcgcacattgacttggtgttgtgacatttgtccttccacagGGAAAGTAACTTCCGTAAAATTCGGAGTAGACGCGAAATACATAGCCATAGGTTCTATGGACCGCAATCTACGGATATTTGGTCTCCCTGGAGATGATCA------

upper sequence: AT2G33340.3 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GRMZM2G324540_T02 (Zea mays), 3'ss of exon 16
---------------------------------------------gtccctta-cctaactccttcaatgatcacatagcgataatgttgctaatttcgaagcccttacactt--gcaggtaaagCTACGTGTGTGAAGTTTGGTTCAGATGCACAGTACGTTGCAGTCGGTTCGATGGACCGTAACCTACGGATATTTGGTCTTCCTGGTGATGAAAAAGCCAA-----------------
                                             ||| |||     || | ||||   | ||    ||||   ||     |  | | |   |  ||   |||   |||| ||||  || |  || || || ||   ||| ||  | ||| | ||  | ||||| |||||||| || ||||||||||||||||| ||||| |||||  ||    |                 
attacccgatttatcaggaacaggtgtgtccctctttttaccatagtctcttggtgcaatttcttcttagttcttggagcgcacattgacttggtgttgtgacatttgtccttccacagggaaagtaacttccgtaaaattcGGAGTAGACGCGAAATACATAGCCATAGGTTCTATGGACCGCAATCTACGGATATTTGGTCTCCCTGGAGATGATCAAATGGAGGAATCAAACACAGCGG

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|116472804|gb|EG515396.1|EG515396
EST:     CTGAATGGAACCTTATCAAGACACTCCCAGATCTTTCCGGCACTGGTAAA                         G
genomic: CTGAATGGAACCTTATCAAGACACTCCCAGATCTCTCCGGCACTGGTAAAgtcccttacc ... gcaggtaaag-
EST: gi|116472804|gb|EG515396.1|EG515396
EST:     CTGAATGGAACCTTATCAAGACACTCCCAGATCTTTCCGGCACTGGTAAA                         G
genomic: CTGAATGGAACCTTATCAAGACACTCCCAGATCTCTCCGGCACTGGTAAAgtcccttacc ... gcaggtaaag-
EST: gi|124731446|gb|EH822848.1|EH822848
EST:     CTGAATGGAACCTTATCAAGACACTCCCAGATCTCTCCGGCACTGGTAAA                         G
genomic: CTGAATGGAACCTTATCAAGACACTCCCAGATCTCTCCGGCACTGGTAAAgtcccttacc ... gcaggtaaag-
EST: gi|124731446|gb|EH822848.1|EH822848
EST:     CTGAATGGAACCTTATCAAGACACTCCCAGATCTCTCCGGCACTGGTAAA                         G
genomic: CTGAATGGAACCTTATCAAGACACTCCCAGATCTCTCCGGCACTGGTAAAgtcccttacc ... gcaggtaaag-
EST: gi|86059718|gb|DR355475.1|DR355475
EST:     TCCCAGATCTCTCCGGCACTGGTAAA                         G
genomic: TCCCAGATCTCTCCGGCACTGGTAAAgtcccttacc ... gcaggtaaag-
EST: gi|86059718|gb|DR355475.1|DR355475
EST:     TCCCAGATCTCTCCGGCACTGGTAAA                         G
genomic: TCCCAGATCTCTCCGGCACTGGTAAAgtcccttacc ... gcaggtaaag-
EST: gi|164228968|gb|EL976423.1|EL976423
EST:     TCCCAGATCTCTCCGGCACTGGTAAA                         G
genomic: TCCCAGATCTCTCCGGCACTGGTAAAgtcccttacc ... gcaggtaaag-
EST: gi|124953130|gb|EL028347.1|EL028347
EST:     CTCCGGCACTGGTAAA                         G
genomic: CTCCGGCACTGGTAAAgtcccttacc ... gcaggtaaag-
EST: gi|124953130|gb|EL028347.1|EL028347
EST:     CTCCGGCACTGGTAAA                         G
genomic: CTCCGGCACTGGTAAAgtcccttacc ... gcaggtaaag-
EST: gi|116444557|gb|EG487149.1|EG487149
EST:     CTGAATGGAACCTTATCAAGACACTCCCAGATCTCTCCGGCACTGGTAAA                         G
genomic: CTGAATGGAACCTTATCAAGACACTCCCAGATCTCTCCGGCACTGGTAAAgtcccttacc ... gcaggtaaag-
EST: gi|116444557|gb|EG487149.1|EG487149
EST:     CTGAATGGAACCTTATCAAGACACTCCCAGATCTCTCCGGCACTGGTAAA                         G
genomic: CTGAATGGAACCTTATCAAGACACTCCCAGATCTCTCCGGCACTGGTAAAgtcccttacc ... gcaggtaaag-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatcacatagcgataatgttgctaatttcgaagcccttacacttgcaggtaaagCTACGTGTGTGAAGTTTGGTTCAGATGCACAGTACGTTGCAGTCGGTTCGATGGACCGTAACCTACGGATATTTGGTCTTCCTGGTGATGAAAAAGCCAA
             ataatgtt  TA-rich tract