Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctcatgtttctgatctgagcatatgtaccag

Basic information

species Arabidopsis thaliana
transcript AT5G07250.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G07250.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os09g35730.1 (Oryza sativa), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctcatgtttctgatctgagcatatgtaccag-----
 |  |||   |||||||||||||| ||||| ||| | ||||| || ||||| |||||||| ||||| ||| | |  |||||||| || || || |||||||||| ||  |||  | |        || ||||    |  | ||  |    |||     ||||| |||||  |||  ||  ||        
TAATAACTACATCTCTGTTGGAGCCTCTGGAGCTTTATTTGGACTGCTTGGATCAATGCTTTCTGAGCTTATTATGAACTGGACTATTTATTCCAACAAGgttagta--aatgagatagatgca-catacattttcactattcagttgc-ttgatgtttgttt-tgatc-aagctaatccactcttgcag

upper sequence: AT5G07250.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G033937_T01 (Zea mays), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaatac------caatctgcttttcatttcaaacatacaaatcactccatcatg--ttggctcatgtttctgatctgagcatatgtaccag
 |  |||   ||||||||||| |||||||| ||| | |||||||| ||||| || ||||| ||||| ||  |||  |||||||| || ||||| |||||||  | |||      ||      | |  | || |      | |    ||  ||  |   || |||| | |   | || ||  | |         
GAATAACTACATCTCTGTTGGTGCTTCTGGAGCTTTATTTGGCCTGCTTGGATCCATGCTTTCTGAGCTACTCATGAACTGGACTATATACTCCAACAAGgccagtacaattaacagataaatatatactttattttatccagctgcttgatagtcatttagctcgtatacttaatttgctcttgcag-----

upper sequence: AT5G07250.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA20G29570.1 (Glycine max), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaac--atacaaatcactccat-catgttggctcatgtttctgatctgagcatatgtaccag-------------------------------------------------------------------------------------------------
|||| ||   ||||||||||| ||||||||||| |||||||| || |||||| ||||||| ||||||||| |||| |||||||| || || || || || || | |   |      | || |  |||  |  ||    ||  ||   | |||| |   | || ||| | |    |  | |     ||                                                                                                  
CAGAGACCACATCTCTGTTGGTGCTTCTGGTGCCCTTTTTGGACTTCTTGGCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAAgtgagtgt-acctaattctttaggtcagcctaatttttatggctttctgcatggttattaatttttttcaatataagagacacctcaaatcttctacactttggctcattgtaatcaattagtttcatatctttaaattatattaacatggcacaagttaacttttttttttactcttgttgtag

upper sequence: AT5G07250.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G38290.1 (Glycine max), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaata---ccaatctgcttttcatttcaaacatacaaatcactccatcat----gttggctca--tgtttctgatctgagcatatgt--accag--------------------------------------------------------------------
|||| ||   |||||||| || ||||||||||| |||||||| || |||||| ||||||| ||||||||| |||| |||||||| || || || || || || | |    | |||    |        |  |  ||    |  || ||  |     |    ||||  | ||  | || |  ||  ||    | ||                                                                     
CAGAGACCACATCTCTGTGGGTGCTTCTGGTGCCCTTTTTGGACTTCTTGGCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAAgtgagtgtacctaattctttaagtcaccctgatttatgggtttcttcaatacaagagacacctcaaatcttcttcattttggctcattgcaatcaattagttttataccttcaaaatagattaacattgtacgagttaacttttgtttttcactctttttgcag

upper sequence: AT5G07250.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G26610.2 (Glycine max), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctcatgtttctgatctg-agcatatgtaccag-----------------
 ||||||| |||||||||||| |||||||||||||| ||||| || |||||  ||||||| || |||||| |||| |||||||  || ||  | || ||||| | ||  ||   |   ||  || | | | ||    |   | |    |||| | |  |  || |||   | |  ||   ||                     
TAGAAACAATATCTCTGTTGGTGCTTCTGGTGCTCTATTTGGACTTCTTGGTGCAATGCTTTCAGAACTTATCACAAACTGGAGTATTTATACCAATAAGgtgagtataaa---gtcattggttcccatcctatttttgttttctgtgtgtttgttagttcttttgaaaaggaaaatgattaatgttatgaaaagattgacaa

upper sequence: AT5G07250.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA16G32150.1 (Glycine max), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGg--ttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctca--tgtttctgatctgagcatatgt--accag---------
 |||||||  || |||||||| |||||||||||||||||||| || |||||  ||||||| || |||||| |||| || ||||  || ||  |||| ||||  ||  | || |||   ||||  | |      |     | | | | |  |    |   |  | ||  || | |||  | || |  || |          
TAGAAACAACATTTCTGTTGGTGCTTCTGGTGCTCTTTTTGGACTTCTTGGAGCAATGCTTTCAGAACTTATCACAAATTGGAGTATTTATACTAATAAGgtgttggttcccatcctatttttgtattctgtgtgtttgttagttctttttaaaaggaaaattattaatgttatgaaaagattttgacaaattcctgtat

upper sequence: AT5G07250.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv16s0100g00640.t01 (Vitis vinifera), 5'ss of exon 3
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaacatacaaatcactccatcatgttggctcatgtttctgatctgagcatatgtaccag
   ||| || ||||||||||| |||||||||||||||||||| ||  | ||  ||||||| || || ||| | || |||||| | || ||  | |||| ||| |    ||||||      |  ||     |  |    | ||     ||  |    | ||||| |    |  | |          
TCAAAATAGCATCTCTGTTGGGGCTTCTGGTGCTCTTTTTGGGCTTTTGGGAGCAATGCTTTCAGAGCTTATTACAAACTGGTCCATGTATACAAACAGGgtgag---caatctagcccactgttgtcttactccttaccctttgagataattagccttgtttgttgcttttgtag---------

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|47831274|gb|CK120958.1|CK120958
EST:     GCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAG                         ATTGCTGCACTCCTGACGCTTTTGTTTGTCATCTTGATAAACTTGGCAATT
genomic: GCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaatacca ... tatgtaccagATTGCTGCACTCCTGACGCTTTTGTTTGTCATCTTGATAAACTTGGCAATT