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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGACACTATTTCGCATTTTTTGCAGCTTGATTTAGTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactttgtttatcatatcaatgttatctctttctgagcatttggaacggtttcttcggggtttgattcatgttgtggtttatgaaacag

Basic information

species Arabidopsis thaliana
transcript AT1G79210.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os02g42320.4 (Oryza sativa), 5'ss of exon 1
-----------ATGACACTATTTCGCATTTTTTGCAGCTTGATTTA---GTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactttgtttatcatatcaatgttatctctttctgagcatttggaacggtttc---ttcggggtttg--attcatgttgtggtttatgaaacag
             ||||| |           |  ||| | |   |    || ||    || |||| ||||| |||||||| || || ||||||||||||||||||   ||   ||   | |  |           |        || |||  |||||||   ||||   | ||   ||  ||| | | |||      |||
TCTTCCGCCGCGAGACACGAAGAGCAGCAGCTCACAGGTAGGCCTGCGCGTCGGCGGCCA-TGGGAGACAGCCAGTACTCCTTCTCCCTCACCACCTTCAGgtatgtgctgccttgcgcctccctcgcccggagatcgggcgtgatctggtgcggtttcggtttcgtcatctgtggtttttgtggcgatttcgtttgcag

upper sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G17810.3 (Glycine max), 5'ss of exon 2
ATGACACTATTTCGCATTTTTTGCAGCTTGATTTAGTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactttgtttatca-tatcaatgttatct--ctttctgagcattt-----ggaacggtttc-ttcggggtttgattcatgttgtggt-ttatgaaacag
                            |   ||    |||||   |||||||| |||||||| ||||||||||||||||| || |||||||    ||| |  | | | ||||| |  | |   ||| ||   || |      ||| ||| |  || | | ||  | | || | || || || || |||||
---------------------------ATTTCTTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAGgtattgttattgctcttaactttcaatttggtttaattttttgtttatattaaagagaagggtatggtttgtgtttcaactgatttcgttgtgttgtggaacag

upper sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA03G16660.1 (Glycine max), 5'ss of exon 2
ATGACACTATTTCGCATTTTTTGCAGCTTGATTTAGT-TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactttg--------tttatcatatcaatgttatctctttctgagcattt---------ggaacggttt--cttcggggtttgattcatgttgtggt-ttatgaaacag
                               | | ||  |||||   |||||||| |||||||| ||||||||||||||||| || |||||||    ||         ||| | | || ||| |||  |   | |||   ||           ||| ||| |    |  || ||  | | ||  ||| || || || |||||
-----------------------------ATTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAGgtattgttattactgataactttttaaaattaattttaatttgatttgatttttgtttatgaagagaatggtgtggtgtgtggtttcaactaattgtgttgtgttgtggaacag

upper sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 1
-------------ATGACACTATTTCGCATTT--TTTGCAGCTTGATTTAGTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactttgtttatcatatcaatgttatctc-tttctgagcatttgga--acggttt--cttcggggtttgattcatgttgtggt-ttatgaaacag
                 |  | ||  | ||    ||||||| ||   ||    |||||   |||||||| |||||||| ||||||||||||||||| || |||||||    ||  | ||   |  ||| | || |  ||| ||   ||   ||  | ||| |    |  || ||  | | ||  ||| || || || |||||
TTTCGTTTCAATTTCTGCGGTGTTGGGTATAAGGTTTGCAGTTT--CTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAGgtattgttcttactgatttaagtaatttgatttgatttttgtttatgaagagaatggtgtggtgtgtggtttcaactaattgtgttgtgttgtggaacag

upper sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA01G25940.3 (Glycine max), 5'ss of exon 2
ATGACACTATTTCGCATTTTTTGCAGCTTGATTTAGTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactttgtttatcatatcaatgttatctc-tttctgagcatttgg--aacggttt--cttcggggtttgattcatgttgtggt-ttatgaaacag
                            |   ||    |||||   |||||||| |||||||| ||||||||||||||||| || |||||||    ||  | ||   |  ||| | || |  ||| ||   ||   |  || ||| |    |  || ||  | | ||  ||| || || || |||||
----------------------------TTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAGgtattgttcttactgatttaagtaatttgatttgatttttgtttatgaagagaatggtgtggtgtgtggtttcaactaattgtgttgtgttgtggaacag

upper sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G17810.5 (Glycine max), 5'ss of exon 2
ATGACACTATTTCGCATTTTTTGCAGCTTGATTTAGTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactttgtttatca-tatcaatgttatct--ctttctgagcattt-----ggaacggtttc-ttcggggtttgattcatgttgtggt-ttatgaaacag
                 |   ||||| ||  ||  |  |||||   |||||||| |||||||| ||||||||||||||||| || |||||||    ||| |  | | | ||||| |  | |   ||| ||   || |      ||| ||| |  || | | ||  | | || | || || || || |||||
--------------TTGTGAGTGCAGATTTCTTGCGC-GGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAGgtattgttattgctcttaactttcaatttggtttaattttttgtttatattaaagagaagggtatggtttgtgtttcaactgatttcgttgtgttgtggaacag

upper sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA01G25940.1 (Glycine max), 5'ss of exon 2
ATGACACTATTTCGCATTTTTTGCAGCTTGATTTAGTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactttgtttatcatatcaatgttatctc-tttctgagcatttgg--aacggttt--cttcggggtttgattcatgttgtggt-ttatgaaacag
                   ||||||| ||   ||    |||||   |||||||| |||||||| ||||||||||||||||| || |||||||    ||  | ||   |  ||| | || |  ||| ||   ||   |  || ||| |    |  || ||  | | ||  ||| || || || |||||
------------------GTTTGCAGTTT--CTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAGgtattgttcttactgatttaagtaatttgatttgatttttgtttatgaagagaatggtgtggtgtgtggtttcaactaattgtgttgtgttgtggaacag

upper sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G17810.1 (Glycine max), 5'ss of exon 2
ATGACACTATTTCGCATTTTTTGCAGCTTGATTTAGTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactttgtttatca-tatcaatgttatct--ctttctgagcattt-----ggaacggtttc-ttcggggtttgattcatgttgtggt-ttatgaaacag
         |   |   |   ||||| ||  ||  |  |||||   |||||||| |||||||| ||||||||||||||||| || |||||||    ||| |  | | | ||||| |  | |   ||| ||   || |      ||| ||| |  || | | ||  | | || | || || || || |||||
---------TGAAGTTGTGAGTGCAGATTTCTTGCGC-GGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAGgtattgttattgctcttaactttcaatttggtttaattttttgtttatattaaagagaagggtatggtttgtgtttcaactgatttcgttgtgttgtggaacag

upper sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G41330.1 (Glycine max), 5'ss of exon 2
ATGACACTATTTCGCATTTTTTGCAGCTTGATTTAGTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtat----------------------taactttgtttatcata---tcaatgttatctctttctgagcatttggaacg-gtttcttcggggtttgattcatgttgtggt-ttatgaaacag
                                ||    |||||   |||||||| |||||||| ||||||||||||||||| || ||||||                      ||| || |||||| ||    | | | || | | | |   |     |||   | | |||  | |  | ||||   | |||| || || || |||||
----------------------------ATTCTTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAGgtatggttagaatcgctgataacttttaatttggtttattatgatttaattattgtttatatgaaatagaatggtgtgtgcttcaactgattgtgatatgttttgttgtgttgtggaacag

upper sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S2_595V6.1 (Physcomitrella patens), 5'ss of exon 1
-ATGACACTATTTCGCATTTTTTGCAGCTTGATTT---AGTTGGTTTTCA---------ATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgt--attaactttgtttatcatat-caatgttatctctt--tctgagcatttggaacggtttcttcggggtttgattcatgttgtggtt-tatgaaacag-
   |   |   ||||   ||    |   ||   |    |||  ||||| |         ||||||||||| ||||||||||| || || |||||||||||||   |  || |   |   | | |   |     || |||  | |    |  | || | |     |||     |  | ||||    | ||    | |     
ACCGGTGCAGCTTCGGTCTTCCAACTATTTCCCTCGTGAGTAAGTTTTAAGCTGCAGCCATGGGGGACAGCCAGTACTCGTTCTCGCTTACCACCTTCAGgttagtgcacatcagtcggcttttgtgacacggtcccttaatttctcgacatcgatcagaggtatcgatagatagt-catgcaacgattgcgcggagttta

upper sequence: AT1G79210.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S61_202V6.1 (Physcomitrella patens), 5'ss of exon 1
-----------ATGACACTATTTCGCATTTTTTGCAGCTTGATTTAGTTGGTTTT--CAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgt--attaactttgtttatcatatcaatgttatctctttc--tgagcatttgg-aacggtttcttcggggtttgattcatgt-tgtggtttatgaaacag--
           |     ||||    |  || |||| |   |      |   |||   | ||||| ||||| |||||||||||||| |||||||| |||||||   |  || | | |        |  |   || |  |    || || | ||| || |||   |   | | ||||| |   |  | || |||   |      
CAGTGCAGCATACCCACCTATACATCCCTTGTTGCTGTGGGGAACCTTCAATTTCAGCTATGGGAGACAGCCAGTACTCGTTTTCGCTCACCACTTTCAGgtttgtgcacctcggtcgcgcagcctcttggattttgtgggatgggcctctggcaatggtagat--agtgattgatccgcatgcgaggattacccatgtctt

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|86065878|gb|DR361635.1|DR361635
EST:     TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAG                         CCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC
genomic: TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactt ... tatgaaacagCCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC
EST: gi|86065881|gb|DR361638.1|DR361638
EST:     TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCABCTTCAG                         CCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC
genomic: TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactt ... tatgaaacagCCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC
EST: gi|86065890|gb|DR361647.1|DR361647
EST:     TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAG                         CCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC
genomic: TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactt ... tatgaaacagCCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC
EST: gi|86065889|gb|DR361646.1|DR361646
EST:     TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAG                         CCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC
genomic: TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactt ... tatgaaacagCCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC
EST: gi|86065879|gb|DR361636.1|DR361636
EST:     TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAG                         CCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC
genomic: TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactt ... tatgaaacagCCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC
EST: gi|47831532|gb|CK121216.1|CK121216
EST:     TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAG                         CCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC
genomic: TGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAGgtattaactt ... tatgaaacagCCCATCAGGGAAGCTGGTTCAGATAGAACATGCCCTAACAGCTGTTGGATC