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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgggatctgatctttacgcaacgtcgaattttctcttatcctcgagggaaacgtttcacagtgttttatttgttgtgtgtctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG

Basic information

species Arabidopsis thaliana
transcript AT2G47510.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 3'ss of exon 1
--------------------------------------------------gttcgggatctgatctttacg----caacgtcgaattttctcttatcc-tcga-gggaaacgtttcacagtgttttatttgttgtgtgtctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG
                                                  |||  | ||||| || | |||    |   |     ||||   | |||  | || |||    | ||  |   ||| ||| | | || |     ||  ||||||| || ||||||||||| ||||||||||||||||| ||||| || ||||||||||| ||||| |  || ||  ||||||| ||||| ||  | 
gtgcgtgtggtttcggtttctctctcctcccgcatggattgctaggaggtgtttcg-atctgttcgtgacggatgccgtggttggttttgattgatctgttgatggggggtgcttttcgtggttgtatgtat-gtatcctgtagGCTGTGGGGCGCGCAGACGCAGAGGTCGCTGCAGAACTTCGACATCGGCGGCGAGCGCGAGCGGATGCCGGTGCCCATCATCCGCGCCTTTGGGGTGCTC

upper sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G010823_T01 (Zea mays), 3'ss of exon 1
-------------------------------------------gttcgg--gatctgatct-ttacgcaacgtcg-aattttctcttatcctcg------agggaaacgtt-----tcacagtgttttatttgttgtg---tgtctc----agATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG
                                            ||| |  |||||  | | |  ||    ||    || | ||  | ||  ||      | |   | ||       |  |  |||||   |||||||   ||| ||    ||  ||||||| || |||||||||||||||||||||||||| || || || || ||||| ||| | ||||| |  || ||  |||| || ||||||||  | 
gtgcgtggttttcccccttgcctccatagatgcatagcagtttattccgttgatctactttgtcgcgtgttgttttgatctgctggtttcgccggcagccaagatgatgtggatgacctgatggtttttcctgttgtgttctgtttcgggcagGCTGTGGGGCGCGCAGACGCAGAGATCGCTGCAGAACTTTGACATTGGCGGGGAGCGTGAGAGGATGCCCGTTCCCATCATCCGTGCCTTTGGCGTGCTA

upper sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G02040.2 (Glycine max), 3'ss of exon 1
gttcgggatctgatctttacgcaacgtcgaattttctcttatcctcgagggaaacgtttcacagtgttttatttgttgtgtgtctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG
||| |    ||  || || | ||   |    || |    |||     ||       ||     ||||||  |    |   |||   ||||| |||||||| || || || |||||| ||||||||||||| ||||||||    ||||| || ||||| ||||| ||  | ||||||||||||||||||
gtttgtt-ccttctcctttcccactctt---ttcttgactatttcttagtatctgattgtgttgtgtttc-tgcactac-tgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGACATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCTTTTGGCGTCTTG

upper sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA02G01930.1 (Glycine max), 3'ss of exon 1
--------------gttcgggatctgatctttacgcaacgtcgaattttctcttatcctcgagggaaacgtttcacagtgttttatttgttgtgtgtctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG
               ||    |  |   ||||  || |  ||   |||| | || |          | |   |     ||| ||  |       |||   ||||| |||||||| || || || |||||| ||||||||||||| ||||||||    ||||| || ||||| ||||| ||  | ||||| ||||||||||||
gttcgttcgtcttccttaattaatttccctttctgccatttcctctttttttttttttcatttcttatctgattgtgttgtgtttctgaactactgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG

upper sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 1
gttcgggatctgatctttacgcaacgtcgaattttctcttatcctcgagggaaacgtttcacag--tgttttatt-tgttgtgtgtct------------cagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG
|||||     |  || |||   ||  |||  || |  | | |||||          ||||||    | | | ||| |||||||| |||             ||||| |||||||| || || || |||||| ||||||||||||| ||||||||    ||||| || ||||| ||||| ||  | ||||| ||||||||||||
gttcgtt-cgtcttccttaattaatttcgctttctgccatttcctctttttttttttttcacttcttatctgattgtgttgtgtttctgaactactgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG

upper sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv14s0060g01690.t01 (Vitis vinifera), 3'ss of exon 1
gttcgggatctgatctttacgcaacgtcgaattttct--cttatc------ctcgagggaaacgtt-tcacagtgttttatttgttgtgtg---------tctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG
       |   ||| |||| | ||  | | |||||    || ||       ||   |  |||  || | | | || || | || |  |||          | | || |||||||| || ||||| || |||||  |||||||||| ||||| ||||| ||| | |||||||||||||| || ||| | || ||||||||  || | 
------aacaggatttttaggtaaaattgcattttaaaactgattaaataactgatgttaaattttgtgatattgattgaattttcctgtaattgacattttttagGTTGTGGGGTGCTCAGACTCAAAGATCATTGCAGAACTTTGAAATTGGTGGCGAGAGTGAGCGAATGCCTGAGCCGATTATTCGGGCTTTTGGGATCCTT

upper sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 2
------gttcgggatctgatctttacgcaacgtcgaattttctcttatcctcga---gggaaacgtttcacagtgttttatttg---ttgtgtgtctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG
      ||   | |         |||  ||  |  || ||  |  |    | |    || ||    ||     |  ||| ||||   |  | | | ||||||||||||| || || || || |||||  ||||||| || || || ||||||||||| || | |||||||||||||||  | || ||||||||| || | 
acggatgtatagaagtgatgtgatacaaaagatttaagttaattctggaataggtatggtaataacttatttttaatttttttggactgatatctttcagATTGTGGGGTGCACAAACTCAAAGATCATTGCAGAATTTTGATATTGGTGGTGAGCGTGAACAAATGCCTGAACCAATCATTCGAGCTTTTGGCATCCTT

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|116480251|gb|EG522843.1|EG522843
EST:     GGGAGGAGAGGGACACCTTCGGGCCGATTCAAGTTCCTTCCGATAA                         ATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGG
genomic: GGGAGGAGAGGGACACCTTCGGGCCGATTCAAGTTCCTTCCGATAAgttcgggatc ... tgtgtctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGG
EST: gi|116457541|gb|EG500133.1|EG500133
EST:     TTTAGGGAGGAGAGGGACACCTTCGGGCCGATTCAAGTTCCTTCCGATAA                         ATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGG
genomic: TTTAGGGAGGAGAGGGACACCTTCGGGCCGATTCAAGTTCCTTCCGATAAgttcgggatc ... tgtgtctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGG
EST: gi|124847035|gb|EH931472.1|EH931472
EST:     TTCCTTCCGATAA                         ATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGG
genomic: TTCCTTCCGATAAgttcgggatc ... tgtgtctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGG
EST: gi|164108183|gb|ES057729.1|ES057729
EST:     GGGCCGATTCAAGTTCCTTCCGATAA                         ATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGG
genomic: GGGCCGATTCAAGTTCCTTCCGATAAgttcgggatc ... tgtgtctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcttatcctcgagggaaacgtttcacagtgttttatttgttgtgtgtctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG
                                 ttttatttgtt  TA-rich tract