Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtgttcttgtcagttatcatgattctcttcatcatcatgtccagaaattgtcggtacatttttatttgaacattggtcaagatatcagcaacctca...

Basic information

species Oryza sativa
transcript LOC_Os03g18370.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g18370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G135359_T04 (Zea mays), 5'ss of exon 5
TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtg--ttcttgtca--gttatcatgattctcttcatcatcatgtccagaaattgtcg-gtacatttttat---------ttgaacattggtca--agatatcagcaacctca-----------------
|||||||||||||||||||| |||||||||||||| || ||||||||||||||||| |||||||||||||||||||| |||||||||||| |||| ||||||||| |  ||  |||||    | ||    ||   |   |||  |   |      |   || ||| | ||||||         ||   ||||| | |  | |  |  ||||   |                  
TTTATGAACTTGCTTGGCTACTGTGAGGAAGAGCATCCCTTTACCAGAGTGATGGTATTTGAATATGCTCCAAATGGGACACTTTTTGAGCATCTCCATGgtaagcgcgttgctgtcatgagtttctcagtttcatctgtcacaaaaactgttcttcagcgtgtagagttttatcactatgacttctgcattgttgatcaaagtttggcaatgccttcctgatttcaccgcag

upper sequence: LOC_Os03g18370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA18G06670.1 (Glycine max), 5'ss of exon 7
TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtgttcttgtc-----agttatcatgattctcttcatcatcatgtccagaaattgtcggtacatttttatttgaacattggtcaagatatcagcaacctca-
||| | ||  |  |||| |||||||| ||  |  | || || || ||  ||||||| ||||| ||||||||||||||||| || |||||| |||| ||  || |||  | ||        |  |  |||||||  | | |  |  ||||     ||   ||  | ||   | |  || |   |  |     |||     || ||  
TTTGTAAATCTTATTGGATATTGTGAAGAGAATAAGCCATTCACAAGGATGATGGTTTTTGAGTATGCTCCAAATGGAACCCTATTTGAGCATCTACACAgtgagtactgttacattcaaaacttgcatgatta-cattacaagaatgtgttttaagaatcattgcaacctaacatgcagcctttttggtgtat-----acttctg

upper sequence: LOC_Os03g18370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA02G39470.1 (Glycine max), 5'ss of exon 10
TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtgttcttgtcagttatcatgattctc-ttcatcatcatgtccagaaattgtcggtacatttttatttgaacattggtcaagatatcagcaacctca
||| ||||  |  |||| |||||||| ||  |  | || ||  | ||| |||||||| |||| |||||||||||||||||||| |||||| |||| ||  || ||||   || | |   |   | | |  | | ||  | ||| |||     |  |   ||||   | ||   ||| |   |      | ||| |      
TTTGTGAATCTCATTGGGTATTGTGAAGAGAATAAGCCATTCTCAAGAATGATGGTGCTTGAGTATGCTCCAAATGGAACACTATTTGAGCATCTACACAgtgagtgacattttgatcaaaatttactaacatccacaaccatatcctcctttgattattacaggctcatagcaacctaacttcttcaaccagaagtaaa-

upper sequence: LOC_Os03g18370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA11G29010.1 (Glycine max), 5'ss of exon 7
TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtgtt--cttgtc---agttatcatgattctcttcatcat---catgtccagaaattgtcggtacatttttatttgaacattggtcaagatatcagcaacctca
||| ||||  |  |||| |||||||| ||  |  | || || || ||  ||||||| ||||| ||||||||||||||||| || |||||| |||| ||  ||||||| |   ||||    | ||  | ||      | |||||    ||||| |   ||   ||  | ||   | |  || |  ||  |     ||||          
TTTGTGAATCTTATTGGATATTGTGAAGAGAATAAGCCATTCACAAGGATGATGGTTTTTGAGTATGCTCCAAATGGAACGCTATTTGAGCATCTACACAgtaagtgctgttttgttcaaaattcacttgcaagattgcatcacacgcatgttctttaagaatcattgcagcctaaaatgcagttttcttggtgtatcct--------

upper sequence: LOC_Os03g18370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA02G43150.1 (Glycine max), 5'ss of exon 9
TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtgttcttgtcagttatcatgattctcttcatcatcatgtccagaaattgtcggtacatttttatttgaacattggtcaagatatcagc--aacctca----
||| | ||  |  |||| || ||||| |||||| | ||||| ||||||||| |||| ||||||||||| ||||| |||||||| |||||| || | ||  ||||||  | |  ||| ||   |  | |  || ||  |    |   | |   |  |   ||| | ||  | | | || ||||||  ||| |||  ||  | |    
TTTGTCAATCTTATTGGATACTGTGAAGAAGAGGATCCTTTCACCAGAGTGTTGGTTTTTGAATATGCCCCAAACGGAACACTATTTGAGCATTTACACAgtaagtactgt-atcattttagagtaattactgcactaaggag---aaaggctaacaacacactctttctagcatat-ggtcaat-tattagctgaaatttattga

upper sequence: LOC_Os03g18370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA11G35570.1 (Glycine max), 5'ss of exon 7
TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtgttcttgtcagttatcatgattctcttcatcatcatgtccagaaattgtcggtacatttttatttgaacat-tggtca--agatatcagcaacctca
||| | ||  | |||||  ||||||| |||||  | ||||| |||||| || |||| ||||| ||||| |||||||||||||| |||||| || | ||  || |||   | | ||| || |  || |  | ||    |  |  |  |  |||  | |       | |||    |  | || |||  |  | | |      |  
TTTGTAAATCTTCTTGGACATTGTGAAGAAGATGAGCCTTTCACCAGAATGGTGGTTTTTGAGTATGCCCCAAATGGAACACTCTTTGAGCATTTACACAgtgagta--cctatca-ttttggtgttattattacatagaaaataaatcaatgattgagtatcctgtatccctatttatgatcatcaacttttaatttgttgg

upper sequence: LOC_Os03g18370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA14G37630.1 (Glycine max), 5'ss of exon 8
TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtgttcttgtcagttatcatgattctcttcatcatcatgtccagaaattgtcggtacatttttatttgaacattggtcaagatatcagcaacctca-
||| ||||  |  |||| |||||||| ||  |  | || ||  | ||| ||||||||||||| || ||||||||||||||||| |||||| |||||||  || |||    || | |   |   |  ||   | ||    ||| |||     |  |   ||||   | ||   ||| |   |      | |||     | | 
TTTGTGAATCTTATTGGGTATTGTGAAGAGAATAAGCCATTCTCAAGAATGATGGTGTTTGAGTACGCTCCAAATGGAACACTCTTTGAGCATCTGCACAgtgagtaacattttgatcaaatttacttacatccacagccatatcctcctttgattattacaggctaatagcaacctaacttcttcaaccag-gctgtgag

upper sequence: LOC_Os03g18370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA14G06230.1 (Glycine max), 5'ss of exon 8
TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtgttcttgtcagttatcatgattctcttcatcatcatgtccagaaattgtcggtacatttttatttgaacattggtcaagatatcagc--aacctca----
||| ||||  |  |||| || ||||| |||||| | ||||| |||||| || |||| ||||||||||| ||||| |||||||| |||||| |||| ||  ||||||  | |  ||| ||     || |  || |  ||| | |   | |   |  |   ||| ||||  | | | | || ||||  |||  ||  ||  |      
TTTGTGAATCTTATTGGATACTGTGAAGAAGAGGAGCCTTTCACCAGAATGTTGGTTTTTGAATATGCCCCAAACGGAACACTATTTGAGCATCTACACAgtaagtaatgt-atcatttta---gagtaactactacattaaggagaaatgctaacaacacactttttctagcatactg-tcaat-tattggccgaaatttgttga

upper sequence: LOC_Os03g18370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv13s0067g01550.t01 (Vitis vinifera), 5'ss of exon 8
TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtgttcttgtcagttatcatgattctcttcatcatcatgtccagaaattgtcggtacatttttatttgaacattggtcaagatatcagcaacctca------
||| | ||| | || || |||||||| |||||| ||||||| |||||| ||||||| |||||||||||||| |||||||| ||||||||| || | ||| |||||  |     ||  || |  | ||  | ||| | |  | | |   || || | |  | | |     |  ||| |||| |||| ||     |   |||      
TTTGTCAACCTTCTCGGATATTGTGAAGAAGAGGAACCTTTCACCAGAATGATGGTTTTTGAATATGCTCCGAATGGAACGCTTTTTGAGCATTTACATAgtaagcatcaaattc--tttttcttatcattttc-ttaaaaggactttaatttatggtcaaaatcaggatataac-ttgg-caagttactc-tatattcagttgat

upper sequence: LOC_Os03g18370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv06s0004g07030.t01 (Vitis vinifera), 5'ss of exon 8
TTTATGAACTTGCTTGGCTATTGTGAGGAAGAGCAACCTTTTACCAGAGTGATGGTGTTTGAATATGCTCCAAATGGAACACTTTTTGAGTATCTGCATGgtaagtgttc--ttgtcagttat-catgattctcttcatcatcatgtccagaaattgtcggtacatt-tttatttgaacattggtcaagatatcagcaacctca
||| ||||| |  |||| | |||||| || ||  | |||||||| ||| ||||||| |||||||||||||| || ||||| || |||||| |||||||  || ||| |     | ||    ||  ||    |  | || |||  | | ||   |   |  |||| |  |||| |  | |||     |    |  | | | |   
TTTGTGAACCTTATTGGGTTTTGTGAAGAGGATAAGCCTTTTACGAGAATGATGGTTTTTGAATATGCTCCTAACGGAACGCTCTTTGAGCATCTGCACAgtgagtatctagctttcctcaatatatacagccatgcagcatatttttcaaggaa-atatgtacttcatttagtatatcatgatctattgcacaaaccaac---

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|58602985|gb|CK013513.1|CK013513
EST:     ATGGTGTTTGAATATGCTCCAAATGGAACACTTTCTTGAGTATCTGCATG                         TTAGAGAAGCCGAGAAGCTGGATTGGATGACGCGGCTCAGGATA
genomic: ATGGTGTTTGAATATGCTCCAAATGGAACACTTT-TTGAGTATCTGCATGgtaagtgttc ... tgtgctgcagTTAGAGAAGCCGAGAAGCTGGATTGGATGACGCGGCTCAGGATA