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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtctttttggctctaaatactgtcccacattgacacatctctgagacatcataactcatcttctctgcagGTTCTTATTGATAACATCAAAGATTTTGCCCCCATTATATACACTCCTACGGTTGGACTTGTTTGTCAGAACTATTCTGGTTTGTATAGAAGACCAAGAG

Basic information

species Arabidopsis thaliana
transcript AT4G00570.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G00570.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G46340.1 (Glycine max), 3'ss of exon 3
-----------------gtgagtctttttggctctaaatac-tgtcccacattgacac------atctctgagacatcataactcatcttctctgcagGTTCTTATTGATAACATCAAAGATTTTGCCCCCATTATATACACTCCTACGGTTGGACTTGTTTGTCAGAACTATTCTGGTTTGTATAGAAGACCAAGAG
                 ||  |  || |    | | ||||| |     | |||  ||       || | |  |   |  || ||  | | |||| |||||||||||||||||||||||||| ||||| || || || || |||||||| |||||  | || ||| | || ||||| || || | |||| | ||  |  
agtgagttgacgatgaagttggctttctaatgtatgaatacatcataaaaattatcattatgtgatttttatgttgtt-taccttttatgctcttcaGGTTCTTATTGATAACATCAAAGAGTTTGCTCCAATAATCTATACTCCTACAGTTGGGTTAGTGTGTGAAAATTATTCCGGGTTATTTAGACGCCCGCGT-

upper sequence: AT4G00570.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G08110.1 (Glycine max), 3'ss of exon 3
----------------------------------------gtgagtctttttggctcta----aatactgtcccacat-tgacacatctctgagacatcataactcatc------ttctctgcagGTTCTTATTGATAACATCAAAGATTTTGCCCCCATTATATACACTCCTACGGTTGGACTTGTTTGTCAGAACTATTCTGGTTTGTATAGAAGACCAAGAG
                                         | | | || |||    ||    ||||   ||  |  | ||  |  | |   |    || ||  || |       || | | ||||||||||||||||| || ||||| ||||| || || ||||| |||||||| |||||| | || ||||| || ||||| || || | |||  | ||| | |
gtgagttagacgatgaagtttgcttttttgtgtttttgagctaaattttcttgttaatataagaatatgatcaaatttctgttatctgttatatgattcttatgtcgttatattttttttttcagGTTCTTATTGATAATATTAAAGAGTTTGCTCCAATAATATATACTCCTACAGTTGGATTAGTGTGTCAAAATTATTCAGGGTTATTTAGGCGTCCACGTG

upper sequence: AT4G00570.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA09G39870.1 (Glycine max), 3'ss of exon 3
-------------gtgagtctttttggc-tctaaatactgtcccacattgacac------atctctgagacatcataactcatcttctctgcagGTTCTTATTGATAACATCAAAGATTTTGCCCCCATTATATACACTCCTACGGTTGGACTTGTTTGTCAGAACTATTCTGGTTTGTATAGAAGACCAAGAG
             ||  | |||  |    | |  ||||      | | | | |       || | |  |   |  || ||  | | | || |||||||||||||||||||||||||| ||||| || || || || || || || |||||  | || ||| | || ||||| || || | |||| | ||| | |
gtgagttgatgaagttgggcttgctaatgtatggatacatcattaaaattatattatgtgatttttatgttgtt-taccttttatgcccttcagGTTCTTATTGATAACATCAAAGAGTTTGCTCCAATAATCTATACCCCCACAGTTGGGTTAGTGTGTGAAAATTATTCAGGGTTATTTAGACGCCCACGTG

upper sequence: AT4G00570.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 3
------------gtgagtctttttggctctaaatactgtcccacattgacacatc--tctgagacatca---taactcatcttctctgcagGTTCTTATTGATAACATCAAAGATTTTGCCCCCATTATATACACTCCTACGGTTGGACTTGTTTGTCAGAACTATTCTGGTTTGTATAGAAGACCAAGAG
            |||   | |  | |||   |||  |  ||||  |   ||  |   ||| | | | ||     | | || |  | | |||||||||||||||||||||||||| ||||| || || ||||||||||| || |||||| | || ||||| ||||| || || |||| |||| | ||| | |
gtaggtttggtggtggtgcatactagctggtaatcttagcccatttaagcattttaatctaataaagcaatcctattgatttcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACAGTTGGATTGGTGTGTCAAAACTACTCGGGGTTGTTTAGACGTCCACGTG

upper sequence: AT4G00570.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ19450 (Selaginella moellendorffii), 3'ss of exon 3
gtgagtctttttggctctaaatactgtcccacattgacacatctctgagacatcataactcatcttctctgcagGTTCTTATTGATAACATCAAAGATTTTGCCCCCATTATATACACTCCTACGGTTGGACTTGTTTGTCAGAACTATTCTGGTTTGTATAGAAGACCAAGAG
|| ||   | |      | || | |    | ||    | ||| | |  |  ||      |    || |||  || |||| ||||| ||||||||  | ||||| |||||||| ||||||||||| ||||| || || || ||||||||   |||| | |  ||| | ||  |||
gtaagcactct--atcgtcaacattaagac-caggagctcatttttttgg-atttctcttttctttttcttaagATTCTCATTGACAACATCAAGAACTTTGCTCCCATTATTTACACTCCTACAGTTGGTCTCGTGTGCCAGAACTACAGTGGTCTTTTCAGACGTCCGCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatactgtcccacattgacacatctctgagacatcataactcatcttctctgcagGTTCTTATTGATAACATCAAAGATTTTGCCCCCATTATATACACTCCTACGGTTGGACTTGTTTGTCAGAACTATTCTGGTTTGTATAGAAGACCAAGAG
                                 tcataac  putative branch site (score: 2)
                                       ctcatcttctctgc  CT-rich tract
                                atcataa  TA-rich tract