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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcttttggcaaaccttttatgttgcttttttcgttatctgttgtaatatgctcttgcttcatgttgtacctttgtgataatgcagTTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCATTAGGACTTCAGTCTCTCCCAGTAGCTTTTGGCACCGAAACTGCAAAAT

Basic information

species Arabidopsis thaliana
transcript AT3G51820.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G51820.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA16G19390.1 (Glycine max), 3'ss of exon 2
gtactcttttggcaaaccttttatgttgcttttttcgttatc--tgttgtaatatgc----------tcttgcttcatgttgtacctttgtgataatgcagTTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCATTAGGACTTCAGTCTCTCCCAGTAGCTTTTGGCACCGAAACTGCAAAAT
       | |   | |   |  |||   |||| || | |||   |    ||||||||          |  |  || || ||||   | | | | | ||||||| ||||| || ||||| || |||||||||||||||||||| ||||| ||  |||| ||||||                                     
----gtatgtaatatattctacatggcactttgttggatatgaatacgataatatgccaaataagaatggttattaatattgttgttgtatcacattgcagTTGGGAATTGCTATTGTCAATGACTTCAAAAGTGTTGAAGGGGATAGGGCTCTAGGGCTTCAG-------------------------------------

upper sequence: AT3G51820.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA07G18470.1 (Glycine max), 3'ss of exon 10
----gtactcttttggcaaaccttttat--gttgcttttttcgttatctgttgtaatatgctcttgcttcatgttgtacctttgtgataatgcagTTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCATTAGGACTTCAGTCTCTCCCAGTAGCTTTTGGCACCGAAACTGCAAAAT
    ||| | || |      |  ||| |  | |     | |  | || ||    |  |   |  |  || ||  |||   | | | | | ||||||| ||||| || ||||| || |||||||||||||||||||| ||||| ||  |||| ||||||                                     
gtatgtaatattctacatggcactttgttggatatgaatatgataatatgccaaataagaatggttattaatactgttgttgtatcacattgcagTTGGGAATTGCTATTGTCAATGACTTCAAAAGTGTTGAAGGGGATAGGGCTCTAGGGCTTCAG-------------------------------------

upper sequence: AT3G51820.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA18G43310.1 (Glycine max), 3'ss of exon 10
----------gtactcttttggcaaaccttttatgttgcttttttcgttatctgttgtaatatgctcttgcttcatgttgtacctttgtgataatgcagTTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCATTAGGACTTCAGTCTCTCCCAGTAGCTTTTGGCACCGAAACTGCAAAAT
           || ||||   | | |  || |  | |     | |  | || |||   |  |   |  |  || |||||||   |   | | | ||||||| ||||| || ||||| || |||||||||||||||||||| ||||| ||  |||| |||||                                      
agtatgtaatatattcttcatg-acattttgttggatatgaatatgataatatgtcaaataaaaatggttattaatgttgttgttaaatcacattgcaGTTGGGAATTGCTATTGTCAATGACTTCAAAAGTGTTGAAGGGGATAGGGCTCTAGGGCTTCA--------------------------------------

upper sequence: AT3G51820.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv08s0105g00590.t01 (Vitis vinifera), 3'ss of exon 10
gtactcttttggcaa-accttttatgttgcttttttcgttatctgttgtaatatgctcttgcttcatgttgtacctttgtgataatgcagTTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCATTAGGACTTCAGTCTCTCCCAGTAGCTTTTGGCACCGAAACTGCAAAAT
||| |||||     |      |||   |   | || | | ||  |     | |  |  |   || || || | | |||     |   ||| | || || |||||||| || ||||| |||||||||||||||||||||||||| |||||||||                                     
gtattctttcacagatgtgccttaacatatgtattgcataataagaaccgacaaacaat-aatttattttttgcattt----catgccagCTGGGCATCGCCATTGTAAATGACTTTAAAAGTGTTGAAGGAGATAGAGCATTGGGACTTCAG-------------------------------------

upper sequence: AT3G51820.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: PP1S5_30V6.1 (Physcomitrella patens), 3'ss of exon 10
---------------------------gtactcttttggcaaaccttttat----gttgcttttttcgttatctgttgtaatatgctcttgcttcatgttgtacctttgtgataat------gcagTTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCATTAGGACTTCAGTCTCTCCCAGTAGCTTTTGGCACCGAAACTGCAAAAT
                             |     || || | | | |||     |    |   |  | | || | | || |    | ||    |       |  || ||||  ||      ||||||||| || || || || ||||||||||||||| ||||||||||| |   | | ||  | |||                                     
gtacccatttctaaccgcccactgtcaacagcaaatttgcgagcttcttagtacagggattccatatgatttccgatttattgcagtgtttaaccggacgaaaggttcgtgaacatccttttgcagTTAGGGATTGCTATCGTCAACGACTTCAAAAGTATTGAAGGAGATCGGCAAATGGGTTTGCAG-------------------------------------

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|125314387|gb|EL328472.1|EL328472
EST:     TTGTTGTTCTAACACTCTTGTACAGCATAGCTGGG                         TTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCA
genomic: TTGTTGTTCTAACACTCTTGTACAGCATAGCTGGGgtactctttt ... gataatgcagTTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCA
EST: gi|125177573|gb|EL196568.1|EL196568
EST:     AGCATAGCTGGG                         TTAGGAATAGCTATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCA
genomic: AGCATAGCTGGGgtactctttt ... gataatgcagTTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCA
EST: gi|124857307|gb|EH941744.1|EH941744
EST:     CCAGATGTTGTTGTTCTAACACTCTTGTACAGCATAGCTGGG                         TTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCA
genomic: CCAGATGTTGTTGTTCTAACACTCTTGTACAGCATAGCTGGGgtactctttt ... gataatgcagTTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgttatctgttgtaatatgctcttgcttcatgttgtacctttgtgataatgcagTTAGGAATAGCCATTGTTAACGACTTCAAAAGTGTTGAAGGAGATAGAGCATTAGGACTTCAGTCTCTCCCAGTAGCTTTTGGCACCGAAACTGCAAAAT
          ttgtaatat  TA-rich tract