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'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   		27  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaaaatactttccttctagttcctcaagccatttcttttctaaacggtgaacgcatagttgtcatgaactatattctaataactcttttgtttatgtagTGAGAACACCAAATCTGCTCTCCAGTCATCAGCATATGTAAATTTGCACTGCAAGGACTATATCAAGTTCACAAAAGATATTTCTTCTCTTAGTCAGCGA

Basic information

species Oryza sativa
transcript LOC_Os03g22420.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G042074_T02 (Zea mays), 3'ss of exon 2
------------------------------------------------------------aaaaaatacttt-ccttctagttcctcaagccatttcttttctaaacggtgaacgcatagttg--tcatgaactata-ttctaataactctt-ttgtttatgtagTGAGAACACCAAATCTGCTCTCCAGTCATCAGCATATGTAAATTTGCACTGCAAGGACTATATCAAGTTCACAAAAGATATTTCTTCTCTTAGTCAGCGA
                                                            |    | ||||  || |  |  | ||    | ||   | ||| |     | |   ||| | ||  ||   |  | || || |  |  || || ||||      |||||  | ||||||| ||| |||  |||||||||||||||| |||| |||||||| |||||  | ||||| ||||||||||| |||||||||||||| |||
gtaagcatacatttgatagtccttgtgctagaaatctaaatactttggtatatcagggaaatctgaaacttaaccgttcacattctaggactatccgtattccagtatctaagttcattgatgaatctgcacttgtaattatgtttcctattattgtccccacagTGATCATACCAAATGTGCCCTCATGTCATCAGCATATGTACATTTACACTGCAAAGACTACTTGAAGTTTACAAAAGATATATCTTCTCTTAGTCAACGA
















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|58662518|gb|CK051204.1|CK051204
EST:     GATCCTAGTGAAATCTCCGAGACATTTGATAGCTGTCCATATTATCTAAG                         TGAGAACACCAAATCTGCTCTCCAGTCATCAGCATATGTAAATTTGCACTG
genomic: GATCCTAGTGAAATCTCCGAGACATTTGATAGCTGTCCATATTATCTAAGgtaaactgta ... gtttatgtagTGAGAACACCAAATCTGCTCTCCAGTCATCAGCATATGTAAATTTGCACTG
EST: gi|58670569|gb|CK059255.1|CK059255
EST:     GATCCTAGTGAAATCTCCGAGACATTTGATAGCTGTCCATATTATCTAAG                         TGAGAACACCAAATCTGCTCTCCAGTCATCAGCATATGTAAATTTGCACTG
genomic: GATCCTAGTGAAATCTCCGAGACATTTGATAGCTGTCCATATTATCTAAGgtaaactgta ... gtttatgtagTGAGAACACCAAATCTGCTCTCCAGTCATCAGCATATGTAAATTTGCACTG
EST: gi|88311581|gb|CI574798.1|CI574798
EST:     GATCCTAGTGAAATCTCCGAGACATTTGATAGCTGTCCATATTATCTAAG                         TGAGAACACCAAATCTGCTCTCCAGGTCATCAGCATATGTAAATTTGCACT
genomic: GATCCTAGTGAAATCTCCGAGACATTTGATAGCTGTCCATATTATCTAAGgtaaactgta ... gtttatgtagTGAGAACACCAAATCTGCTCTCCAG-TCATCAGCATATGTAAATTTGCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggtgaacgcatagttgtcatgaactatattctaataactcttttgtttatgtagTGAGAACACCAAATCTGCTCTCCAGTCATCAGCATATGTAAATTTGCACTGCAAGGACTATATCAAGTTCACAAAAGATATTTCTTCTCTTAGTCAGCGA
                                taataac  putative branch site (score: 1)
                                      ctcttttgttt  CT-rich tract
                      aactatattctaataa  TA-rich tract