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

...ggtcatgtgaatactacatattgtttagtttttcttatttatggagtataatatcattctgtctacttccaatcaatgactgccttttgttctgtggtagGCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGA

Basic information

species Oryza sativa
transcript LOC_Os12g30020.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g30020.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G377311_T01 (Zea mays), 3'ss of exon 2
-ggtcatgtgaatactacatattgtttagtttttcttatttatggagtataatatcattctgtctacttccaatcaatgactgccttttgttctgtggtagGCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGA
   |    || || || |||       |  |||    |  ||   | | |    |||| || |   ||   ||    |  ||  | | || | | |  |||||| ||||| || ||||| ||||| || || |||||||| ||||||||||||||||| |||| |||||||||||||||||||
atatttaatggatcctgcattcacaccaagtttgtcaaagtaaatacttttcgctcatccttttatctcgtaaaatctaccttacctgtgctgtttt-tagGCCCCAAGTGACGATTGCCACAGCAATGGTATTCTGTCATCGTTTTTACCTTCGTCAATCCCTTGCAAAAAATGATAGACGA

upper sequence: LOC_Os12g30020.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G115670_T01 (Zea mays), 3'ss of exon 1
ggtcatgtgaatactacatattgttta-gtttttcttatttatggagtataatatcattctgtctactt-ccaatcaatgactgccttttgttctgtggt---agGCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGA
     ||  | |  |  || || |  | |   | | |  | ||  | |||  |   | ||| |   ||   |  |   | |  | | || ||||  || |   ||||| ||||| || |||||||||||||  || |||||||||||||||| ||||||||| ||||||||||| ||||||||||||
-----tggaacttttttatgttttaaatggactgcattgtcatcaaatatgttggaagtcttttagctcatccttttctcatagtcattggttcgctgtttttagGCCCCAAGTGACGATTGCTACAGCTACGGTATTCTGTCACCGTTTTTTCCTTCGTCAATCCCATGCAAAGAATGATAGACGA

upper sequence: LOC_Os12g30020.2 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv19s0027g01670.t01 (Vitis vinifera), 3'ss of exon 1
ggtcatgtgaatactacat-attgtttagtttttcttatttatg-gagtataatatcattctgtctacttccaatcaatgactgccttttgttctgtggtagGCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGA
     |   | |  |  || ||| |||  |   ||  |  |  |  | ||   ||| ||| | | | |  |    |  ||| |        ||   | | ||||| || || || ||||||||||| ||  | || ||||||||||| | ||||||||| ||||||||||| ||||| ||| | 
--atttcctactgttttattatttttttatgcctcaaacatgagcaaatagtttataattgtttttccagcatcactgtgattatgaacattttaattgcagGCCCCAGGTAACAATTGCTACAGCAATCATATTTTGTCACCGTTTCTTCCTTCGTCAATCCCATGCAAAGAATGACAGAAGG

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|86904853|gb|CI310646.1|CI310646
EST:     CGAAAATCATATTGTACTTTTCTACAAGATTTGGGCATGAGGCTTAAAGT                         GCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCT
genomic: CGAAAATCATATTGTACTTTTCTACAAGATTTGGGCATGAGGCTTAAAGTgtaagatcat ... tctgtggtagGCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCT
EST: gi|58668632|gb|CK057318.1|CK057318
EST:     CGAAAATCATATTGTACTTTTCTACAAGATTTGGGCATGAGGCTTAAAGT                         GCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCT
genomic: CGAAAATCATATTGTACTTTTCTACAAGATTTGGGCATGAGGCTTAAAGTgtaagatcat ... tctgtggtagGCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCT
EST: gi|33674887|gb|CF303126.1|CF303126
EST:     CGAAAATCATATTGTACTTTTCTACAAGATTTGGGCATGAGGCTTAAAGT                         GCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCT
genomic: CGAAAATCATATTGTACTTTTCTACAAGATTTGGGCATGAGGCTTAAAGTgtaagatcat ... tctgtggtagGCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCT
EST: gi|33675720|gb|CF303959.1|CF303959
EST:     CGAAAATCATATTGTACTTTTCTACAAGATTTGGGCATGAGGCTTAAAGT                         GCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCT
genomic: CGAAAATCATATTGTACTTTTCTACAAGATTTGGGCATGAGGCTTAAAGTgtaagatcat ... tctgtggtagGCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCT
EST: gi|29677818|gb|CB674093.1|CB674093
EST:     CGAAAATCATATTGTACTTTTCTACAAGATTTGGGCATGAGGCTTAAAGT                         GCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCT
genomic: CGAAAATCATATTGTACTTTTCTACAAGATTTGGGCATGAGGCTTAAAGTgtaagatcat ... tctgtggtagGCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtataatatcattctgtctacttccaatcaatgactgccttttgttctgtggtagGCCACAAGTCACTATTGCTACAGCTATTGTGTTCTGTCACCGTTTTTACCTTCGTCAGTCCCATGCAAAAAATGATAGACGA
                                  ctgccttttgttct  CT-rich tract
     atatcatt  TA-rich tract