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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATGGTGATGGTGCTGCGAATCAGGGACAGTTGTTTGAAGCTTTGAATATTTCTGCTCTTTGGGATTTGCCTGCAATTTTGGTCTGCGAGAACAATCACTgtaagcatttttgcttctttctttctttctttctttctttgtaggtttgttttgtcgtagtatctgattgaatttgatctgtgcag

Basic information

species Arabidopsis thaliana
transcript AT1G59900.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G59900.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA08G40380.1 (Glycine max), 5'ss of exon 1
TATGGTGATGGTGCTGCGAATCAGGGACAGTTGTTTGAAGCTTTGAATATTTCTGCTCTTTGGGATTTGCCTGCAATTTTGGTCTGCGAGAACAATCACTgtaagca-----tttttgcttctttctttctttcttt-------ctttctttgtaggtttgttttgtcgtagtatctgattgaatttgatctgtgcag--
|| |||||||||||||| |||||||| |||||||| || ||  | || ||||| |||||||||||| | ||  | ||||||||||||||||| ||||||||| || |     | |  | |  |||    |||| |||       ||||   | || |    || |     ||   ||   |||  ||| |      |   
TACGGTGATGGTGCTGCCAATCAGGGCCAGTTGTTCGAGGCGCTTAACATTTCCGCTCTTTGGGATCTCCCCTCCATTTTGGTCTGCGAGAATAATCACTgtgagtatgaaatgtggggtggttttagactttgtttggataaacttttcctttaagacaattgttaatcagcggctttatgacattggttaaaaaatta

upper sequence: AT1G59900.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA02G03080.1 (Glycine max), 5'ss of exon 1
TATGGTGATGGTGCTGCGAATCAGGGACAGTTGTTTGAAGCTTTGAATATTTCTGCTCTTTGGGATTTGCCTGCAATTTTGGTCTGCGAGAACAATCACTgtaagc--atttttgcttctttctttctttctttctttctttgtaggtttgttttgtcgtagtatctgattgaatttgatctgtgcag--------------
||||| ||||| ||||| |||||||||||| | ||||| ||  | |||||  | || ||||||||| | ||||| ||||||||||||||||| ||||||||||||    |    | || ||| ||| ||| || |      |||  |||  |  | | ||  ||  ||   || |   | |  || |               
TATGGAGATGGCGCTGCCAATCAGGGACAGCTCTTTGAGGCGCTTAATATCGCCGCGCTTTGGGATCTTCCTGCTATTTTGGTCTGCGAGAATAATCACTgtaagtcagtgaagggttgttttttttttttttccggcaaatgttagttgctagtattgt--tagttgggggattcgaacccatgaactttccccctttccc

upper sequence: AT1G59900.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA18G17240.1 (Glycine max), 5'ss of exon 1
TATGGTGATGGTGCTGCGAATCAGGGACAGTTGTTTGAAGCTTTGAATATTTCTGCTCTTTGGGATTTGCCTGCAATTTTGGTCTGCGAGAACAATCACTgtaagcatttt-tgcttctttctttctttctttctttctttgtaggtttgttttgtcgtagtatctgattgaatttgatctgtgcag--------------
|| || ||||||||||| |||||||| |||||||| || ||  | || |||||||| ||||||||| | ||  | ||||||||||||||||| ||||||||| ||  |    ||     |  |||    |||| |||   |  |  |||    |   | |    || ||| | |    |  |    |              
TACGGCGATGGTGCTGCCAATCAGGGGCAGTTGTTCGAGGCGCTTAACATTTCTGCGCTTTGGGATCTCCCCTCCATTTTGGTCTGCGAGAATAATCACTgtgagtgtgaaatgtgaggtggttttagactttgtttggataaacttttccactaaggcaaatgctaatt-agtacccttagcattgagttaaggaattaa

upper sequence: AT1G59900.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv09s0018g01940.t01 (Vitis vinifera), 5'ss of exon 1
TATGGTGATGGTGCTGCGAATCAGGGACAGTTGTTTGAAGCTTTGAATATTTCTGCTCTTTGGGATTTGCCTGCAATTTTGGTCTGCGAGAACAATCACTgtaagcatttttgcttctttctttctttctttctttctttgtaggtttgttttgtcgtagtatctgattgaatttgatctgtgcag
|| |||||||| || ||||| ||||| |||||||| || ||  | |||||  | || |||||||||||||| || |||||||| ||||||||||||||||||||| | |   |  | ||   |  ||    |       ||   | |||| |     ||   | |  ||||| ||  | || ||||
TACGGTGATGGAGCAGCGAACCAGGGGCAGTTGTTCGAGGCGCTTAATATGGCGGCACTTTGGGATTTGCCGGCGATTTTGGTTTGCGAGAACAATCACTgtaagaaatgagggattttatataattggaat-------tgggtggttgtgtgagtttaa-gtttatttgaacttt-tatgggcag

upper sequence: AT1G59900.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv01s0026g00990.t01 (Vitis vinifera), 5'ss of exon 1
TATGGTGATGGTGCTGCGAATCAGGGACAGTTGTTTGAAGCTTTGAATATTTCTGCTCTTTGGGATTTGCCTGCAATTTTGGTCTGCGAGAACAATCACTgtaagcatttttgc-ttctttctttctttctttc---tttctttgtaggtttgtttt-gtcgtagtatctgattgaatttgatctgtgcag
|| |||||||| || ||||||||||| |||||||| || ||  | |||||  | || |||| ||||||||| || |||||||| ||||||||||||||||||||| | |   |  |||| |  |  ||    ||    |  | |||  ||| | ||  ||   | | |||  ||||| ||  | || ||||
TACGGTGATGGAGCAGCGAATCAGGGGCAGTTGTTCGAGGCACTTAATATAGCGGCGCTTTTGGATTTGCCAGCGATTTTGGTTTGCGAGAACAATCACTgtaagaaatgagggattctatagtaattggaatcgggctgttgtgtgagttcgattgagtttcaatttct--ttgaacttcttttg-gcag

upper sequence: AT1G59900.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S56_222V6.1 (Physcomitrella patens), 5'ss of exon 1
TATGGTGATGGTGCTGCGAATCAGGGACAGTTGTTTGAAGCTTTGAATATTTCTGCTCTTTGGGATTTGCCTGCAATTTTGGTCTGCGAGAACAATCACTgtaagcatttttgctt-----ctttctttctttctttctttctttgtaggtttgttttgtcgtagtatctgatt--gaatttgatctgtgcag------------------------------------------------------------------------------
||||||||||| ||||| ||||| |||||| |||| || ||  |||| |||||||| ||||||||| |||| |  || |  ||||||||||||||||| ||| || ||  |||||      |  |   ||  | | |    | ||    |||      || | | | |    ||  |  |   || ||| ||                                                                               
TATGGTGATGGCGCTGCTAATCAAGGACAGCTGTTCGAGGCCATGAACATTTCTGCACTTTGGGATCTGCCAGTTATCTATGTCTGCGAGAACAATCATTgtgagtataattgctctaaaaccctaaatcgatgtgttgaacatttggagttatgcgggtagaaatgtagacttctggctcgaatatgttcaattgtcttctactaccaatgcatcgttctccttggcgtgaaattctgtcggaattaagaattggctctgttaatgacag

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|164057907|gb|EL992621.1|EL992621
EST:     TTCTGCTATTTGGGATTTGCCTGCAATTTTGGTCTGCGAGAACAATCACT                         ATGGAATGGGAACT
genomic: TTCTGCTCTTTGGGATTTGCCTGCAATTTTGGTCTGCGAGAACAATCACTgtaagcattt ... atctgtgcagATGGAATGGGAACT
EST: gi|125192332|gb|EL207286.1|EL207286
EST:     TTCTGCTCTTTGGGATTTGCCTGCAATTTTGGTCTGCGAGAACAATCACT                         ATGGAATGGGAACTGCTGAATGGAGAGCCGCTAAGAGTCCAT
genomic: TTCTGCTCTTTGGGATTTGCCTGCAATTTTGGTCTGCGAGAACAATCACTgtaagcattt ... atctgtgcagATGGAATGGGAACTGCTGAATGGAGAGCCGCTAAGAGTCCAT
EST: gi|124920991|gb|EH994655.1|EH994655
EST:     CAATTTTGGTCTGCGAGAACAATCACT                         ATGGAATGGGAACTGCTGAATGGAGAGCCGCTAAGAGTCCATCTTACT
genomic: CAATTTTGGTCTGCGAGAACAATCACTgtaagcattt ... atctgtgcagATGGAATGGGAACTGCTGAATGGAGAGCCGCTAAGAGTCCATCTTACT