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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatggttcaaaaatacattaatgtccatttcttagattttcagacactatcatctctagatagtgatatgatgcatgatcacattagctccaatgagtcaattttgtttctttgtttattttcttggagGATATGTGTCGGTTGCCAAGCTGAGATAGGACATGGAAGGTTTCTGAGTTGCATGGGTGGCGTTTGGCATCCTGAATGTTTCTGTTGCAATGCATGTGAT

Basic information

species Arabidopsis thaliana
transcript AT4G36860.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G017845_T04 (Zea mays), 3'ss of exon 4
gtaaatggttcaaaaatacattaatgtccatttcttagattttcagacactatcatctctagatagtgatatgatgcatgatcacattagctccaatgagtcaattttgtttctttgtttattttcttggagGATATGTGTCGGTTGCCAAGCTGAGATAGGACATGGAAGGTTTCTGAGTTGCATGGGTGGCGTTTGGCATCCTGAATGTTTCTGTTGCAATGCATGTGAT
                             | | || |       | |||| |  ||   | |   |  | ||      |   |   ||  |||  |  | |   || | |    |   || |||||| | ||   ||| |  || || ||    ||||| || || ||  | ||||| ||||||||||| |  ||||||||||| ||||||||  ||||| ||||||||  |
---------------------------gtaatgctcaaga----acacaccaggatgattggcatggaagatatcattttgaccttttttctcttactatttttttatataaactaacttcttttct-gcagAGCATGCGCAGGATGTCACAGAGAGATTGGTCACGGGCGTTTTCTCAGTTGCATGGGAGCTGTTTGGCATCCGGAATGTTTTCGTTGCCATGCATGTAGT

upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G25750.1 (Glycine max), 3'ss of exon 4
gtaaatggttcaaaaatacattaatgtccatttcttagattttcagacactatcatctctagatagtgatatgatgcatgatcacattagctccaatgagtcaattttgtttctttgtttattttcttggagGATATGTGTCGGTTGCCAAGCTGAGATAGGACATGGAAGGTTTCTGAGTTGCATGGGTGGCGTTTGGCATCCTGAATGTTTCTGTTGCAATGCATGTGAT
                          || |  |   |||  || |   | | |   || |  |||      |||    |  | | |  |      |   |  ||   || ||||| |   || | |||| || || ||||  || ||| |  | ||||| || |||||||| ||| ||||||||||||| ||   ||||||||| |||||||| |||||| |||| ||  | 
-------------------------atcaagatagaagacattta--taatgtttccttttcataaattcttgaattttacttataaaac-----agaggctaaaactggttcttgggaaatgtgcttgcagAATCTGTGCTGGCTGCAATTCCGAGATTGGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCAGAATGTTTTTGTTGCCATGCTTGCAAA

upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA02G06720.2 (Glycine max), 3'ss of exon 4
gtaaatggttcaaaaatacattaatgtccatttcttagattttcagacactatcatctctagatagtgatatgatgcatgatcacattagctccaatgagtcaattttgtttctttgtttattttcttggagGATATGTGTCGGTTGCCAAGCTGAGATAGGACATGGAAGGTTTCTGAGTTGCATGGGTGGCGTTTGGCATCCTGAATGTTTCTGTTGCAATGCATGTGAT
                          || |  |   |||| |  |   | | |  ||| |  |||      |||    |  | | |  | |    |   || ||   || |||||     || | |||| || || |||   || ||  | |||||||| || |||||||| ||| ||||||||||||| ||   ||||||||| ||||| || |||||| |||| ||  | 
--------------------------tcaagatagaagatatcta--taatgttttcttttcataaattcttgaattttacttataaaaac----agaggttaaacctggttcttgcaaaatgtgcttgcagAATCTGTTCTGGCTGTAATGCTGAGATTGGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCAGAATGCTTTTGTTGCCATGCTTGCAAA

upper sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 3'ss of exon 5
gtaaatggttcaaaaatacattaatgtccatttcttagattttcagacactatcatctctagatagtgatatgatgcatgatcacattagctccaatg-agtcaattttgtttctttgtttattttcttggagGATATGTGTCGGTTGCCAAGCTGAGATAGGACATGGAAGGTTTCTGAGTTGCATGGGTGGCGTTTGGCATCCTGAATGTTTCTGTTGCAATGCATGTGAT
                     |||       |||| |  ||||  | || | ||    ||  || ||| | | ||| |   ||  || ||  |  |    || ||||        |   || |        ||||| ||||  || ||| |    ||||| || |||||||| | | |||||||||||||||  ||||||||||| ||||||||  |||||  ||| ||||  
------------------tgataaatagggcttctcatgttttatgtcattctc----ctgcat-gtg-tgtcatggact-tcgtatgagacctcacatggttaattacacaatatcacttgt--------agGATCTGTGCTGGGTGCAACTGCGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGG

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|125299021|gb|EL313106.1|EL313106
EST:     TATCCCTTCCTCATTCCTTCTAGTCACAG                         GATATGTGTCGGTTGCCAAGCTGAGATAGGACATGGAAGGTTTCTGAGTTG
genomic: TATCCCTTCCTCATTCCTTCTAGTCACAGgtaaatggtt ... tttcttggagGATATGTGTCGGTTGCCAAGCTGAGATAGGACATGGAAGGTTTCTGAGTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgatcacattagctccaatgagtcaattttgtttctttgtttattttcttggagGATATGTGTCGGTTGCCAAGCTGAGATAGGACATGGAAGGTTTCTGAGTTGCATGGGTGGCGTTTGGCATCCTGAATGTTTCTGTTGCAATGCATGTGAT
                           ttttgtttctttgttt  CT-rich tract
                         aattttgtttctttgt  TA-rich tract