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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatttgtcttaggttcatgatttgctcctgctatctactctgttccattatctttttcccctgctgtttgcctaactgaatgtctctctcactctgcttgttatagGTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCG

Basic information

species Arabidopsis thaliana
transcript AT1G02090.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G02090.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G152100_T02 (Zea mays), 3'ss of exon 1
gtatatttgtcttaggttcatgatttgctcctgctatctactctgttccattatctttttcccctgctgtttgcctaactgaatgtctctctcactctgcttgttatagGTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCG
    |   ||  | |   ||  ||   ||  | || |||| ||  |   | ||| |||||||  |    ||    |       | | | | | |   |  ||  |  || || | || ||||||   || |||   ||||| ||||||||||| ||  | |||||||| || ||||| |||||||| ||||||||||| 
---gaagcgttcttgtagcaaaat---cttttactttctattccat---actatatttttcctgtagaattctaatgtactcctttttttattataattttttcttcagATACTACCATATGATCAGCTCATGCAAGAGTTGGATGTTTCCAACGTAAGAGAACTCGAAGATTTTCTAATCAATGAGTGCATGTATGCA

upper sequence: AT1G02090.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G027551_T01 (Zea mays), 3'ss of exon 1
gtatatttgtcttaggttcatgatttgctcctgctatctactctgttccattatctttttcccctgctgtttgcctaactgaatgtctctctcactctgcttgttatagGTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCG
  |||   ||  | |   ||  ||   ||  | || |||| ||  |   | ||| |||| |  | |   | |     |||   | | |  || |   |  ||  |  || || | || ||||||   || |||   ||||| ||||||||||| ||  | |||||||| || ||||| |||||||| ||||||||||| 
--ataagcgttcttgtagcaaaat---cttttactttctattccat---actatattttcctacagaattctaatgtactcctttttttact-ataattttttcttcagATACTACCATATGATCAGCTCATGCAAGAGTTGGATGTTTCCAACGTAAGAGAACTCGAAGATTTTCTAATCAATGAGTGCATGTATGCA

upper sequence: AT1G02090.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv15s0021g01580.t01 (Vitis vinifera), 3'ss of exon 3
gtatatttgtcttaggttcatgatttgctcctgctatctactctgttccattatctttttcccctgctgtttgcctaactgaatgtctctctcactctgcttgttatagGTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCG
 |  |||| | ||   | |||  |||||| |  | |  | |    ||     |  |     |     || ||  |||  ||| |   | | |     | ||||    ||||| | |||||||||  ||| |||   || ||||||||| | ||||| || ||||| || || |||||||||||||| ||||||||||||
-tccattttttttttttccat--tttgcttccaccaaattcctgattatgacagttgcaaacttgcatgattttcta--tgactaatttttt---gttacttgcc-cagGTACTCCCCTATGATCAACTGATGCAGGAATTAGATGTTACAAATGTACGTGAACTTGAAGATTTTCTTATCAATGAGTGCATGTATGCG

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|301502449|gb|HO207989.1|HO207989
EST:     TTCTTAAGCTTAAGCAGCTCACTGTCCTCACCCTTGCTGAGTCTAACAAG                         GTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGC
genomic: TTCTTAAGCTTAAGCAGCTCACTGTCCTCACCCTTGCTGAGTCTAACAAGgtatatttgt ... cttgttatagGTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGC
EST: gi|124714810|gb|EH806212.1|EH806212
EST:     AGCTTAAGCAGCTCACTGTCCTCACCCTTGCTGAGTCTAACAAG                         GTATCGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGC
genomic: AGCTTAAGCAGCTCACTGTCCTCACCCTTGCTGAGTCTAACAAGgtatatttgt ... cttgttatagGTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttttcccctgctgtttgcctaactgaatgtctctctcactctgcttgttatagGTATTGCCCTATGATACACTAATGGTCGAGTTAGATGTTTCCAATGTTCGCGAACTCGAGGACTTTCTTATCAATGAATGCATGTATGCG
                               tctctctcactctgct  CT-rich tract
                                              ttgttata  TA-rich tract