Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgagaatgtgggtagattacgttttggaatagaatctactcaccgtgaatttgataagaggctagttttgtagGTGCTGCATTCTGGGGAAGGTCCAATTCATTCTGTGAAGTGGAGAGGAAGTCTCATCGCCTGGGCTAATGATGTTGGTGTTAAAGTTTATGATACAGCCA

Basic information

species Arabidopsis thaliana
transcript AT1G08190.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08190.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G19660.2 (Glycine max), 3'ss of exon 2
gtttgtgagaatgt------gggtagattacgttttgg-aatagaatctactcaccgtgaatttgataagaggctagttttgt-------------------agGTGCTGCATTCTGGGGAAGGTCCAATTCATTCTGTGAAGTGGAGAGGAAGTCTCATCGCCTGGGCTAATGATGTTGGTGTTAAAGTTTATGATACAGCCA
|||||| |||||||         |||   |  ||||   || || | ||  |    || ||    | ||    |  |   |                     ||||  |||| ||||| |||||| |||| ||| ||||||| ||||||| ||||||  | || |||||||||||||  || || || ||||||||||| ||||
gtttgtaagaatgttttattacttagcacatattttctcaacagtaccttttgtttgttaacgataaaattaccccgccctaccctccccaccctccccaaaagGTTTTGCACTCTGGTGAAGGTTCAATACATGCTGTGAAATGGAGAGCAAGTCTTGTTGCTTGGGCTAATGATGCAGGAGTGAAGGTTTATGATACTGCCA

upper sequence: AT1G08190.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv15s0024g01120.t01 (Vitis vinifera), 3'ss of exon 1
gtttgtgagaatgtgggtagattacgttttggaatagaatctactcaccgtgaatttgataagaggctagttttgtagGTGCTGCATTCTGGGGAAGGTCCAATTCATTCTGTGAAGTGGAGAGGAAGTCTCATCGCCTGGGCTAATGATGTTGGTGTTAAAGTTTATGATACAGCCA-------------------
            ||   |   |||  ||||  ||||  |   |   |   ||  |  | ||| ||| |        |||| || || ||||| |||||||| || |||   ||||||||||||  ||||| ||| || |||||||||||||  ||||| |||||||||||||| || |                   
------------gtcatttatttat-ttttttaataatacaaa---aagatggctaggttaaaaggat-------caggttctacactctggtgaagGTCCTATACATGTAGTGAAGTGGAGAACAAGTCCCATTGCTTGGGCTAATGATGCAGGTGTAAAAGTTTATGATACTGCTAATGATCAGCGTATAACATT

upper sequence: AT1G08190.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 2
gtttgtgagaatgtgggtagattacgtt--ttggaatagaatctactcac----------cgtgaatttgataagag-gctagttttgtagGTGCTGCATTCTGGGGAAGGTCCAATTCATTCTGTGAAGTGGAGAGGAAGTCTCATCGCCTGGGCTAATGATGTTGGTGTTAAAGTTTATGATACAGCCA
|||||||  |      |   |    |||  |||    | || ||  | ||          | ||||||  | |||        |||| ||||| || || ||||| |||||||| || ||| | ||||||||||||  ||||||||| || |||||||||||||  ||||| |||||||||||||| || |
gtttgtgctagctcttgctaacgttgttgcttgtgccaaaacctggttactttcctggttcctgaattgcagaagtttatcctttttctagGTTCTACACTCTGGTGAAGGTCCTATACATGCAGTGAAGTGGAGAACAAGTCTCATTGCTTGGGCTAATGATGCAGGTGTAAAAGTTTATGATACTGCTA

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|116414673|gb|EG457265.1|EG457265
EST:     CTGGTCACTTGTATATGAACTCCAAGAAGTGGTTCGGTAATAAAGATCAG                         GTGCTGCATTCTGGGGAAGGTCCAATTCATTCTGTGAAGTGGAGAGGAAGT
genomic: CTGGTCACTTGTATATGAACTCCAAGAAGTGGTTCGGTAATAAAGATCAGgtttgtgaga ... agttttgtagGTGCTGCATTCTGGGGAAGGTCCAATTCATTCTGTGAAGTGGAGAGGAAGT
EST: gi|125149559|gb|EL182659.1|EL182659
EST:     TTGGTCACTTGTATATGAACTCCAAGAAGTGGTTCGGTAATAAAGATCAG                         GTGCTGCATTCTGGGGAAAGGTCCAATTCATTCTGTGAAG
genomic: CTGGTCACTTGTATATGAACTCCAAGAAGTGGTTCGGTAATAAAGATCAGgtttgtgaga ... agttttgtagGTGCTGCATTCTGGGGAA-GGTCCAATTCATTCTGTGAAG
EST: gi|86068273|gb|DR364030.1|DR364030
EST:     CTGGTCACTTGTATATGAACTCCAAGAAGTGGTTCGGTAATAAAGATCAG                         GTGCTGCATTCTGGGGAAGGTCCAATTCATTCTGTGAAGTGGAGAGGAAGT
genomic: CTGGTCACTTGTATATGAACTCCAAGAAGTGGTTCGGTAATAAAGATCAGgtttgtgaga ... agttttgtagGTGCTGCATTCTGGGGAAGGTCCAATTCATTCTGTGAAGTGGAGAGGAAGT
EST: gi|86068274|gb|DR364031.1|DR364031
EST:     CTGGTCACTTGTATATGAACTCCAAGAAGTGGTTCGGTAATAAAGATCAG                         GTGCTGCATTCTGGGGAAGGTCCAATTCATTCTGTGAAGTGGAGAGGAAGT
genomic: CTGGTCACTTGTATATGAACTCCAAGAAGTGGTTCGGTAATAAAGATCAGgtttgtgaga ... agttttgtagGTGCTGCATTCTGGGGAAGGTCCAATTCATTCTGTGAAGTGGAGAGGAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgttttggaatagaatctactcaccgtgaatttgataagaggctagttttgtagGTGCTGCATTCTGGGGAAGGTCCAATTCATTCTGTGAAGTGGAGAGGAAGTCTCATCGCCTGGGCTAATGATGTTGGTGTTAAAGTTTATGATACAGCCA
                             aatttgataa  TA-rich tract