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

TGGCTGCTCCTTTGTTTATATGCGAATCAGCAATGTCTACATCGTCATTGTTGTCAGTAGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAGgtaaacttgtttttgtgtttcattttaatattccacaattgttttgattcttgttcaaatttcaagagagtcagattgattctatacacatactgcttttgattcacattttcag

Basic information

species Arabidopsis thaliana
transcript AT5G46630.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G46630.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os02g46510.1 (Oryza sativa), 5'ss of exon 2
TGGCTGCTCCTTTGTTTATATGCGAATCAGCAATGTCTACATCGTCATTGTTGTCAGTAGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAGgtaaacttgtttttgtgtttcattttaatattccacaattgttttgat-tcttgttcaaatttcaagagagtcagattgattctatacacatactgcttttgattcacattttcag
 ||||| || ||  |||| ||| | || || |||||||| || || || || || || ||||||||||||||||||||||  ||||| ||||| || ||||||  |     ||| | |    ||| |||| |    |||    |  || |    | || |  | |  | |     ||    |  ||  | ||   |||   ||             
AGGCTGTTCATTCCTTTACATGAGGATTAGTAATGTCTATATTGTGATCGTGGTTAGCAGCAATGCTAATGTTGCTTGTGCTTTCAAGTTTGTCGTGGAGgtatgcaa---tttatatcatctttgaataatttggaataaaataaatataacatgcatacat-attacatctctatgatctagatgaatatgaagctcaagaa------------

upper sequence: AT5G46630.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G331032_T01 (Zea mays), 5'ss of exon 2
TGGCTGCTCCTTTGTTTATATGCGAATCAGCAATGTCTACATCGTCATTGTTGTCAGTAGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAGgtaaacttgtttttgtgtttcattttaatattccacaattgttttgattcttgttcaaatttcaagagagtcagattgattctatacacatactgcttttgattcacattttcag
 |||||||||||  |||||||| | ||||| ||||| ||||| || || || || || ||||||||||||||||| ||||  |||||||||||||| ||||||  ||    ||| |||   ||      |||  |       ||  ||  |   | ||||   |  | ||||   ||| ||    |        | ||   || || || |    
AGGCTGCTCCTTCCTTTATATGAGGATCAGTAATGTTTACATTGTGATCGTAGTTAGCAGCAATGCTAATGTTGCATGTGCTTTCAAATTTGTTGTCGAGgtatgctaccctttctgtgatatgcatgcattaaaacgaaaattgcatagtccatgaaatcatattacagtc---ttggtttagga--------gtttgaaatacaaatat----

upper sequence: AT5G46630.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA17G16630.3 (Glycine max), 5'ss of exon 2
TGGCTGCTCCTTTGTTTATATGCGAATCAGCAATGTCTACATCGTCATTGTTGTCAGTAGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAGgtaaacttgtttttgtgtttcattttaatattccacaattgttttgattcttgttcaaatttcaagagagtcagattgattctatacacatactgcttttgattcacattttcag
||| ||||| ||  |||| ||| | ||||||||||||||||| ||||||||||| || | |||||| ||||| ||||| |  ||||| |||||||||||||||   | | |    | | | |   |  |  |     ||   |||   |  | |  |  ||  ||   |  | | ||   |   |    ||  |   ||  ||            
TGGATGCTCTTTCTTTTACATGAGGATCAGCAATGTCTACATTGTCATTGTTGTTAGCAACAATGCCAATGTCGCTTGCGCTTTCAAGTTTGTTGTTGAGgtactgtagctcacct-tgttagggtgctgcttgtgcatgacttt--cttctatctagcttataattaatcctgttttggttgttgttaatgttttgttaaat------------

upper sequence: AT5G46630.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA05G23670.2 (Glycine max), 5'ss of exon 2
TGGCTGCTCCTTTGTTTATATGCGAATCAGCAATGTCTACATCGTCATTGTTGTCAGTAGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAGgtaa------acttgtttttgtgtttcattttaatattccacaattgttttgattcttgttcaaatttcaagagagtcagattgattctatacacatactgcttttgattcacattttcag
||| ||||| ||  |||| ||| | ||||| ||||||||||| |||||||||||||| | ||| || ||||| ||||| |  ||||| |||||||||||||||       | || |   | |  ||||  || || |   |  |  |||||| ||   || |   ||      || |    |  ||       | | |||                     
TGGATGCTCTTTCTTTTACATGAGGATCAGTAATGTCTACATTGTCATTGTTGTCAGCAACAACGCCAATGTCGCTTGCGCTTTCAAGTTTGTTGTTGAGgtattgcaccatttctacctataattcacctttatctgagatgaaggttttg-ttggggtgctgcttgtgcatgactttcttctatctagcttata-actat-------------------

upper sequence: AT5G46630.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv02s0012g00910.t01 (Vitis vinifera), 5'ss of exon 2
TGGCTGCTCCTTTGTTTATATGCGAATCAGCAATGTCTACATCGTCATTGTTGTCAGTAGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAGgtaaacttgtttttgtgtttcattttaatattccacaattgttttgattcttgttcaaatttcaagagagtcagattgattctatacacatactgcttttgattcacattttcag
 || ||||| ||  |||||||| ||||||||||||| ||||| || ||||| ||||| |||||||| ||||| ||||||| |||||| |||||||||||||||   ||||  |    ||   ||||   ||   |       ||||| | | || || ||        | | || || | || | |    || | ||||  |||           
AGGTTGCTCTTTCTTTTATATGAGAATCAGCAATGTGTACATTGTGATTGTGGTCAGCAGCAATGCCAATGTAGCTTGTGCATTCAAGTTTGTTGTTGAGgtag--ttgtcatctccttgtttttttgcatcttatcg--aatttgactat-gtccatataaatgagcaataagcttcagtcaacaaggttagt-ctttgaattgg---------

upper sequence: AT5G46630.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S54_156V6.1 (Physcomitrella patens), 5'ss of exon 2
TGGCTGCTCCTTTGTTTATATGCGAATCAGCAATGTCTACATCGTCATTGTTGTCAGTAGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAGgtaaacttgtttttgtgtttcattttaatattccacaattgttttgattcttgttcaaatttcaagagagtcagattg-attctatacacatactgcttttgattcacattttcag
 |||||||| ||| | || ||||| ||||||||||| ||||| |||| |||||| || |||||||| ||||  ||||| |  |||||||| || |||||||||    | | || |    || | | |  |     || | | |   |  |||| || | | | |   ||  | || || | | |  ||  |  | |  |||  ||           
AGGCTGCTCTTTTTTGTACATGCGCATCAGCAATGTGTACATAGTCACTGTTGTTAGCAGCAATGCCAATGCAGCTTGCGCCTTCAAATTCGTGGTTGAGgtatgtct-tattagcaagtcttctcacaagctttcattggatccaa--cttgatccagtgtta---gatccggactgcaattttcacgaagccagagtttcgttt----------

upper sequence: AT5G46630.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: EFJ22278 (Selaginella moellendorffii), 5'ss of exon 2
TGGCTGCTCCTTTGTTTATATGCGAATCAGCAATGTCTACATCGTCATTGTTGTCAGTAGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAGgtaaacttgtttttgtgtttcattt-taatattccacaattgttttgattcttgttcaaatttcaagagagtcagattgattctatacacatactgcttttgattcacattttcag
||| ||||||||  | || ||||| ||||||||||||||||| || || || ||||| |||||||| |||| ||| ||||   ||||||||||||| |||||  ||   ||      |||  ||| |  | |||   || | |  |  ||  |  |    |||  | ||                                               
TGGATGCTCCTTCCTCTACATGCGGATCAGCAATGTCTACATTGTGATCGTCGTCAGCAGCAATGCCAATGCTGCCTGTGCTCTCAAATTTGTTGTGGAGgtctacactttcagagattttgtttctcttgttcttaaactttgctcctttctcgttggtttttcacag-----------------------------------------------

upper sequence: AT5G46630.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: EFJ25669 (Selaginella moellendorffii), 5'ss of exon 2
TGGCTGCTCCTTTGTTTATATGCGAATCAGCAATGTCTACATCGTCATTGTTGTCAGTAGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAGgtaaacttgtttttgtgtttcattt-taatattccacaattgttttgattcttgttcaaatttcaagagagtcagattgattctatacacatactgcttttgattcacattttcag
||| ||||||||  | || ||||| ||||||||||||||||| || || || ||||| |||||||| |||| ||| ||||   |||||||||| || |||||  ||   ||      |||  ||| |  | |||   || | |  |  ||  |  |    |||  | ||                                               
TGGATGCTCCTTCCTCTACATGCGGATCAGCAATGTCTACATTGTGATCGTCGTCAGCAGCAATGCCAATGCTGCCTGTGCTCTCAAATTTGTCGTGGAGgtctacgctttcagagattttgtttctcttgttcttaaactttgctcctttctcgttggtttttcacag-----------------------------------------------

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|124901454|gb|EH975534.1|EH975534
EST:     TTGTCAGTGGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAG                         GCTGTAGCTTTGTTCAAATCATACTTTGGTGGAGCTTTTG
genomic: TTGTCAGTAGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAGgtaaacttgt ... acattttcagGCTGTAGCTTTGTTCAAATCATACTTTGGTGGAGCTTTTG
EST: gi|124980591|gb|EL053533.1|EL053533
EST:     TTGCTTGTGGATTCAAATTTGTTGTTGAG                         GCTGTAGCTTTGTTCAAATCATACTTTGGTGGAGCTTTTGATGAAGACGCT
genomic: TTGCTTGTGGATTCAAATTTGTTGTTGAGgtaaacttgt ... acattttcagGCTGTAGCTTTGTTCAAATCATACTTTGGTGGAGCTTTTGATGAAGACGCT
EST: gi|86085683|gb|DR381442.1|DR381442
EST:     TTGTCAGTAGCAATGCTAACGTTGCTTGTGGATTCAAATTCGTTGTTGAG                         GCTGTTGCTTTGTTCAAATCATACTTTGGTGGAGCTTTTGATGAAGACGCT
genomic: TTGTCAGTAGCAATGCTAATGTTGCTTGTGGATTCAAATTTGTTGTTGAGgtaaacttgt ... acattttcagGCTGTAGCTTTGTTCAAATCATACTTTGGTGGAGCTTTTGATGAAGACGCT