Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCAACAACGACATTCCTGCTCCAAACAACACTTTCCAAACCATCCTCACTAAGTTCAAGCGTCAAGGCCTTGATCTCGTCGATCTTGTCTCCCTCTCAGgtatacatatctatccatctttattacacgaaacattttcaataacttattacacttttaagaagcggatacatatgatttatag

Basic information

species Arabidopsis thaliana
transcript AT5G66390.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G66390.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g15830.1 (Oryza sativa), 5'ss of exon 3
TCCAACAACGACATTCCTGCTCCAAACAACACTTTCCAAACCATCCTCACTAAGTTCAAGCGTCAAGGCCTTGATCTCGTCGATCTTGTCTCCCTCTCAGgtatacatatctat-ccatcttt--attacacgaaacattttcaataa-------cttattacacttttaagaagcggatacatatgatttatag
|||||||||||||| || ||||| ||||||||  |||  |||||| |||| ||||||||||| || |||||| |  |||||||  | ||  |||||||||||  || | |   | |||||||   | ||   |   |  ||||   |         || ||||| |    | ||  || | ||||     || ||
TCCAACAACGACATCCCAGCTCCCAACAACACCCTCCCCACCATCATCACCAAGTTCAAGCGCCAGGGCCTTAACATCGTCGACGTCGTAGCCCTCTCAGgtgaacttcttcttaccatcttatgagtatgtgcgtccatttcttgagagagatctttcttacattgcacaaaaatgggtgcataca---tacag

upper sequence: AT5G66390.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g36240.1 (Oryza sativa), 5'ss of exon 3
TCCAACAACGACATTCCTGCTCCAAACAACACTTTCCAAACCATCCTCACTAAGTTCAAGCGTCAAGGCCTTGATCTCGTCGATCTTGTCTCCCTCTCAGgtatacatatc-tatc-catctttattacacgaaacattttcaataacttattacacttt----taagaagcggatacatatgatttatag---------
|||||||||||||| || ||||| ||||||||  |||  |||||| |||| ||||||||||  || ||||| ||  ||||||| || ||| |||||   |||||  ||||  | || ||| |   ||| |    |   |||  |||  || ||||   ||    ||     | |  ||   || | |||||         
TCCAACAACGACATCCCGGCTCCCAACAACACCCTCCCCACCATCATCACCAAGTTCAAGCTCCAGGGCCTCGACATCGTCGACCTCGTCGCCCTCCTCGgtatttatattatgtcgcatatgatttataatctatcctttatatatattgttacgacttaacctatttgtcagtgactgttgttatatagcgctagtga

upper sequence: AT5G66390.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G023840_T01 (Zea mays), 5'ss of exon 3
TCCAACAACGACATTCCTGCTCCAAACAACACTTTCCAAACCATCCTCACTAAGTTCAAGCGTCAAGGCCTTGATCTCGTCGATCTTGTCTCCCTCTCAGgtatacatatctatccatct-ttattacacgaaac-attttcaataacttattacactt-----ttaagaagcggatacatatgatttatag--------
|||||||||||||| |||||||| ||||||||| |||  |||||| |||| ||||||||||  || ||||| ||  ||||||| || ||| | |||   ||||   |  | || | | ||  || ||  |   || ||| ||    || |  | ||  |     || | |   | ||  |     || ||          
TCCAACAACGACATCCCTGCTCCCAACAACACTCTCCCCACCATCATCACAAAGTTCAAGCTCCAGGGCCTCGACATCGTCGACCTCGTCGCACTCCTCGgtacgtacgtatacctagctactagtatcctgcacgattatcttctacatgatgcagctggggctttacagaagcatctagcgtcttcatgtcacgatcc

upper sequence: AT5G66390.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA11G07670.1 (Glycine max), 5'ss of exon 3
TCCAACAACGACATTCCTGCTCCAAACAACACTTTCCAAACCATCCTCACTAAGTTCAAGCGTCAAGGCCTTGATCTCGTCGATCTTGTCTCCCTCTCAGgtataca----------tatctatccatc-tttattacacgaaacattttcaataacttattacacttttaagaagcggatacat-atgatttatag---
||||| ||| ||||||||||||| |||||||| || || |||||| | ||||||||||||| | | || |||||  | || ||||| ||  | || || |||| ||           ||||| |  ||  | ||||||    ||  ||   |  |  ||  |  |   |||         || || |  ||||| |    
TCCAATAACAACATTCCTGCTCCCAACAACACATTTCAGACCATCTTAACTAAGTTCAAGCTTAAGGGGCTTGACATTGTTGATCTAGTTGCTCTATCTGgtagactcctagtactttatctgtttatggtctattaccttcaaagttcaaagcatgttggtttatggttatagtttctttagatgactatttacaaatt

upper sequence: AT5G66390.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA01G37630.1 (Glycine max), 5'ss of exon 3
TCCAACAACGACATTCCTGCTCCAAACAACACTTTCCAAACCATCCTCACTAAGTTCAAGCGTCAAGGCCTTGATCTCGTCGATCTTGTCTCCCTCTCAGgtatacatatctatccatctttattacacgaaacattttcaataacttat-tacactt----ttaagaagcggatacatatg-atttatag---------
|| || ||| ||||||||||||| |||||||| ||||| |||||  | ||||||||||||| | | || |||||  | || ||||| ||  | || || ||||    |  |  | | |  ||  |  | |     ||  |   ||   || ||   ||    |||  |   |  |  ||  | ||||| |          
TCAAATAACAACATTCCTGCTCCCAACAACACATTCCAGACCATTTTAACTAAGTTCAAGCTTAAGGGGCTTGACATTGTTGATCTAGTTGCTCTATCTGgtaagactcccagtactttatttgtctatggttttttgccttcaaagcatgtaggtttatggttataatttgttttgatgagtatttacaaacttaacct

upper sequence: AT5G66390.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA16G24610.1 (Glycine max), 5'ss of exon 3
TCCAACAACGACATTCCTGCTCCAAACAACACTTTCCAAACCATCCTCACTAAGTTCAAGCGTCAAGGCCTTGATCTCGTCGATCTTGTCTCCCTCTCAGgtatacatatctatccatctttattacacgaaacattttcaataacttattacacttttaagaagcggatacatatgatt-tatag---------------
||||||||| |||| || || ||||||||||| ||||| ||||| || ||||| ||||| | ||| || |||||||| || ||||| ||  | || |||||||||||  ||||  | | | | || |  ||    | |        | | |     || || ||    ||   ||||||  | ||                
TCCAACAACAACATCCCAGCCCCAAACAACACATTCCAGACCATTCTAACTAAATTCAACCTTCAGGGGCTTGATCTTGTTGATCTAGTTGCTCTATCAGgtatacac-tctaaacttttctgtttctagacttttgtgttcaggttgagttatggttaaaaaaatttattggtatgatcatctaatcatatcattgcaat

upper sequence: AT5G66390.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv04s0023g02570.t01 (Vitis vinifera), 5'ss of exon 3
TCCAACAACGACATTCCTGCTCCAAACAACACTTTCCAAACCATCCTCACTAAGTTCAAGCGTCAAGGCCTTGATCTCGTCGATCTTGTCTCCCTCTCAGgtatacatatctatccatctttattacacgaaacattttcaataacttatt-acacttttaagaagcggatacatatgatttatag------------------
||||||||| |||||||||||||||||||||| ||||| ||||| ||||| ||||||||||  || || ||| |  |||| ||||||||  | || || ||||   | ||  ||  |  ||| ||| || |    ||| ||  ||||   | |   || |||||||| ||||    | |||| |                    
TCCAACAACAACATTCCTGCTCCAAACAACACCTTCCAGACCATTCTCACCAAGTTCAAGCTACACGGGCTTAACATCGTGGATCTTGTTGCTCTATCTGgta---aaattgatgaaagttt-tta-actacttttttacaggaactccctgatgattgtaagaagcagatatggttaatttttcttctgataattgagtgcag

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|152037719|gb|BP795989.2|BP795989
EST:     TAAGTTCAAGCGTCAAGGCCTTGATCTCGTCGATCTTGTCTCCCTCTCAG                         GAAGTCACACCATTGGAAACTCGAGG
genomic: TAAGTTCAAGCGTCAAGGCCTTGATCTCGTCGATCTTGTCTCCCTCTCAGgtatacatat ... tgatttatagGAAGTCACACCATTGGAAACTCGAGG