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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAGGAGATTTCAAAGAGCAATGTTGTAGACGACATGGTAGCTAGTAATGGCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAGgtttgattttgaatcagaggccagagtgatcaattcctcctttctttttaagtacattttaaagtcttaaatcctgctattgttctgaatgttttgcag

Basic information

species Arabidopsis thaliana
transcript AT2G22240.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G22240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os03g09250.2 (Oryza sativa), 5'ss of exon 7
TAAGGAGATTTCAAAGAGCAATGTTGTAGACGACATGGTAGCTAGTAATGGCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAGgtttgattttgaatcagaggccagagtg-atcaattcctcctttctttttaagtacattttaaagtcttaaatcctgctattgttctgaatgttttgcag
 |||||||| || ||||||||||| || || ||||||||  | || |||| |||||||| ||||| ||| || || ||||| ||||| ||||| |||||||||||   ||    ||  |       || | || |    | ||       || |   ||||  |   ||||| | ||    |||    | | || |||||
CAAGGAGATCTCCAAGAGCAATGTGGTCGATGACATGGTCTCAAGCAATGCCATCCTCTATGAGCTTGGCGAGCATCCTGATCATGTTGTTGTGATCAAGgtttgcaatttgtccatggattcttctgcagcagtatgccattaaaaaaaaacttagttttgga---ttaaaacttgtccatgt----attcttctgcag

upper sequence: AT2G22240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G155242_T01 (Zea mays), 5'ss of exon 7
TAAGGAGATTTCAAAGAGCAATGTTGTAGACGACATGGTAGCTAGTAATGGCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAGgtttgattttgaatcagaggccagagtgatcaattcctcctttctttttaagtacattttaaagtcttaaatcctgctattgttctgaatgttttgcag
 |||||||| || |||||||| || || || ||||||||  | || |||| |||||||| |||||| || || || || || |||||||||||||||||||| || |     |||     ||    | |  | ||      | |     |  |  |  || ||   |   |  ||  | |||                 
CAAGGAGATCTCCAAGAGCAACGTGGTGGATGACATGGTCTCGAGCAATGCCATCCTCTATGAGCCCGGCGAGCATCCCGATCATGTCGTTGTCATCAAGgtctgttagctgatctttcacctcgttaaa-agttgacatatgcaaggcagatttacattgaaacttgtcactcttttgttgcag--------------

upper sequence: AT2G22240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G14670.3 (Glycine max), 5'ss of exon 6
TAAGGAGATTTCAAAGAGCAATGTTGTAGACGACATGGTAGCTAGTAATGGCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAGgtttgattttgaatcagaggccagagtgatcaattcctcctttctttttaagtacattttaaagtcttaaatcctgctattgttctgaatgttttgcag
 ||||| ||||| |||||||||||||| ||||| |||||    || || | |||||||| ||||||||||||||| || |||||||| |||||||| |||||   ||||| | |   || |        |||   |   |||||   || | |   || |  | |      | | |  |||  | |    |||||||||
GAAGGAAATTTCCAAGAGCAATGTTGTTGACGATATGGTCAACAGCAACGCCATCCTCTATGAGCCTGGTGAACATCCGGACCATGTGGTTGTCATTAAGgt--aatttttatttttagtc------actca---ctctctttcaaattcaattggttctttatttgactcttcggtaattaatttattggttttgcag

upper sequence: AT2G22240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G02210.4 (Glycine max), 5'ss of exon 7
TAAGGAGATTTCAAAGAGCAATGTTGTAGACGACATGGTAGCTAGTAATGGCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAGgtttgattttgaatcagaggccagagtgatcaattcctcctttctttttaagtacattttaaagtcttaaatcctgctattgttctgaatgttttgcag
 ||||| || || |||||||| ||||| ||||| |||||    || |||| |||||||| ||||||||||||||| || |||||||| ||||| || ||||| |   ||||  |||              | |||  ||  |  || ||   |   || | | |||||  || ||     || | ||     |||||||
CAAGGAAATCTCCAAGAGCAACGTTGTTGACGATATGGTCAACAGCAATGCCATCCTCTATGAGCCTGGTGAACATCCCGACCATGTTGTTGTTATTAAGgtata--tttgtttca-------------cccatttttcactatttctt---tctcttgtcaggtctttgattctatc--tgctttgttgcctttgcag

upper sequence: AT2G22240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G02210.3 (Glycine max), 5'ss of exon 7
--------------------------------TAAGGAGATTTCAAAGAGCAATGTTGTAGACGACATGGTAGCTAGTAATGGCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAGgtttgattttgaatcagaggccagagtgatcaattcctcctttctttttaagtacattttaaagtcttaaatcctgctattgttctgaatgttttgcag
                                 ||||| || || |||||||| ||||| ||||| |||||    || |||| |||||||| ||||||||||||||| || |||||||| ||||| || ||||| |   ||||  |||     |  | |  ||| |   || ||   || | ||                                               
ATGAATCTCTCGGCTCCACAAACCTTCCGCTCCAAGGAAATCTCCAAGAGCAACGTTGTTGACGATATGGTCAACAGCAATGCCATCCTCTATGAGCCTGgtgaacatcccgaccatgttgttgttattaaggtata--tttgtttca-----cccatttttcactatttctttctcttgtcag-----------------------------------------------

upper sequence: AT2G22240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 5'ss of exon 7
TAAGGAGATTTCAAAGAGCAATGTTGTAGACGACATGGTAGCTAGTAATGGCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAGgtttgattttgaatcagaggccagagtg-atcaattcctcctttctttttaagtacattttaa--agtcttaaatcctgctattgttctgaat-----gttttgcag
 |||||||| || |||||||||||||| ||||||||||| || || || |  ||||| | ||||||||| || |||||||||||||| || ||||||||||| |      ||| |        |  || ||  ||| |   |    |  |   |     | |   | ||| |    ||   ||| | | |  |      | ||||||
CAAGGAGATCTCCAAGAGCAATGTTGTCGACGACATGGTTGCCAGCAACGCTATCCTGTATGAGCCTGGGGAGCACCCTGACCATGTGGTGGTCATCAAGgtatatcgcagaaccctccttttgtttgtatgtattacaattcagatgctggtttggactcattcattctcactggctaacattatacggtgttgttgatattgcag

upper sequence: AT2G22240.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ37320 (Selaginella moellendorffii), 5'ss of exon 7
TAAGGAGATTTCAAAGAGCAATGTTGTAGACGACATGGTAGCTAGTAATGGCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAGgtttgattttgaatcagaggccagagtgatcaattcctcctttctttttaagtacattttaaagtcttaaatcctgctattgttctgaatgttttgcag
 ||||| || || ||||||||||| || |||||||||||  |||| |||| |||| | ||  |||| |||||||| ||||| |||||  | |||||||||||         || || | ||  ||               ||| ||| || | |      ||| ||   | |  |||| | ||| |  |          
CAAGGAAATCTCCAAGAGCAATGTGGTTGACGACATGGTTTCTAGCAATGCCATCTTGTTCAAGCCCGGTGAACATCCTGATCATGTGATCGTCATCAAGgt--------aaaacaaacgcttga---------------tttttttctaggga------aaactcccgagtt-tgctttcgttttctag---------

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|86066779|gb|DR362536.1|DR362536
EST:     CATCCTCTTTGAGCCTGGTGAACACCCTGACCCATGTCGTTGTCATCAAG                         TATGTGCCATATGTTGCGGATAGTAAAAGAGCAATGGATGAGTACACGTCT
genomic: CATCCTCTTTGAGCCTGGTGAACACCCTGACC-ATGTCGTTGTCATCAAGgtttgatttt ... tgttttgcagTATGTGCCATATGTTGCGGATAGTAAAAGAGCAATGGATGAGTACACGTCT
EST: gi|164162231|gb|EL999178.1|EL999178
EST:     CACCCTGACCATGTCGTTGTCATCAAG                         TATGTACCATATGTTGCGGATAGTAAAAGAGCAATGGATGAGTACACGTCT
genomic: CACCCTGACCATGTCGTTGTCATCAAGgtttgatttt ... tgttttgcagTATGTGCCATATGTTGCGGATAGTAAAAGAGCAATGGATGAGTACACGTCT
EST: gi|164217111|gb|ES039565.1|ES039565
EST:     GCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAG                         TATGTACCATATGTTGCGGATAGTAAAAGAGCAA
genomic: GCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAGgtttgatttt ... tgttttgcagTATGTGCCATATGTTGCGGATAGTAAAAGAGCAA
EST: gi|86066778|gb|DR362535.1|DR362535
EST:     GCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAG                         TATGTGCCATATGTTGCGGATAGTAAAAGAGCAATGGATGAGTACACGTCT
genomic: GCATCCTCTTTGAGCCTGGTGAACACCCTGACCATGTCGTTGTCATCAAGgtttgatttt ... tgttttgcagTATGTGCCATATGTTGCGGATAGTAAAAGAGCAATGGATGAGTACACGTCT