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'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAGCTTTGAAATTCGAGCACCGCAACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcactataataagttgagtattacaatcttagagataggatctcagagactcggacataataaaagttattgtgcaatatcttgattcttgcct...

Basic information

species Oryza sativa
transcript LOC_Os01g56580.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G116086_T01 (Zea mays), 5'ss of exon 4
GTAGCTTTGAAATTCGAGCACCGCAACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcactataataagttgag------tattacaatcttagagataggatctcagagact-cggacataataaaagttattgtgcaatatcttgattcttgcct
|| ||||||||||| |||||||| ||||| ||||| |||||||||||||||||||||||||||||||||||||||||||| || |||| ||||  ||       |||||   ||||| ||| |  || | || ||    ||  |||| ||||  || | |  || ||  ||  || |    
GTTGCTTTGAAATTTGAGCACCGAAACAGCAAGGGCTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattacattatattaagccgaaagtgtatattatgctcttataga-ataattttagggatcatggttataa-aaaatgtactcta-aacatggtgtatcat----

upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 4
GTAGCTTTGAAATTCGAGCACCGCAACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcactataataagt---tgagtattacaatcttagagataggatctcagagac--tcggacataataaaagttattgtgcaatatcttgattcttgcct-------------
|| ||  | || || |||||| | ||||| || |||||||| ||||| ||||| |||||||||||||| || |||||  |   || |  |  ||   | |  |  |  |||    | | | | | |     |   || ||  |  ||| | ||||| |  |||      |||  |   |             
GTTGCACTTAAGTTTGAGCACAGAAACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaata-ttattatctaattctcacatttgtaatttgacattgataag

upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 4
GTAGCTTTGAAATTCGAGCACCGCAACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcactataataagttgagtattacaatcttagagataggatctcagagactcggacataataaaagttattgtgcaatatcttgattcttgcct---
||||| ||||| || |||||||| || || || || ||||||||||||||||| |||||||||||||| || | ||||    ||||      ||| | | |     | ||| |  ||    || | |   |    |||  | |   || || | |  | | ||    | |       
GTAGCATTGAAGTTTGAGCACCGGAATAGCAAAGGATGCAATTATGGCCCTCCTTATGAGTGGCAAGTCTACAAgtaa---gactaattgtggttaaattt----gttttaaatttaaaggcttaaattat----cattttgatttttgtttttctttctttttcccccttgaaaag

upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 5'ss of exon 3
GTAGCTTTGAAATTCGAGCACCGCAACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcactataataagttgagtattacaatc-ttagagataggatctcagagact-cggacataataaaag--ttattgtgcaa--tatcttgattcttgcct-----------------------------------------------------------
|||||||| || || || || || | ||| ||||||||||||||||| ||||| || |||||||||||||| | ||    |      |   | |      || | ||| || |  | |   ||   |  | | | |    |||   ||  | || ||| |   ||| ||  | ||  |                                                             
GTAGCTTTAAAGTTTGAACATCGGAGCAGCAAGGGTTGCAATTATGGTCCTCCTTACGAGTGGCAAGTTTACAAgtg--cgtctcgaaccgactcagtcctttctatcctttgctacaatgtcattggaattgctgttccaattctagcctcatcgtggaggttatttttgtgctgtcgggttcaatctaattaggtcataaatgttaatggtgatgataatccttggttgttgcgcag

upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 5'ss of exon 3
GTAGCTTTGAAATTCGAGCACCGCAACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaa---------ttgcactataataagttgagtattacaatcttagagataggatctcagagactcggacataataaaagtt---attgtgcaatatc-ttgattcttgcct-----------------------------------
|| || ||||| |||||||| || |  |||||||| ||||||||||| ||||| ||||||||||| ||||| | ||           ||| || ||  | | || | | ||   || | |  | |||  || ||   ||       || |     ||   ||  |  ||| |  ||    |||| ||                                   
GTTGCGTTGAAGTTCGAGCATCGGAGTAGTAAGGGCTGCAATTATGGTCCTCCTTATGAGTGGCAGGTTTACACgtgcgtctcaagcttgtaccattgtgatttcactcttgagatgtgattgctagtgtcgcatttacctctctgtatttcttattttcatcatcaaatgtgattagggcttgtctcctaaccttgatggctggcgcgggtctttctgcag

upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
GTAGCTTTGAAATTCGAGCACCGCAACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcactataataagttgagtattacaatcttagagataggatctcagagactcggacataataaaagttattgtgcaatatcttgattcttgcct
|| |||||||| || || ||| | | |||||| || ||||| ||||| ||||| ||||||||||||||||| | |||  || |  ||  |   |||  | ||    |||| | | |  | |   |     |||    | ||    |                            
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgta--tgtagcat--tgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag-------------------------

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|29629024|gb|CB634035.1|CB634035
EST:     AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAG                         TGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA
genomic: AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcac ... tgtgtttcagTGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA
EST: gi|29623307|gb|CB628318.1|CB628318
EST:     AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAG                         TGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA
genomic: AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcac ... tgtgtttcagTGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA
EST: gi|58661787|gb|CK050467.1|CK050467
EST:     AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAG                         TGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA
genomic: AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcac ... tgtgtttcagTGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA