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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagatgctttcttctgtagctctctacatgttttgtgtagttagtaaatctgatgcatctaactttatcctttgctattaacagGTGGAGGGTGTGTTTCTGGGTTGCAGCTGTTCCAGCAACTTTACAAGCTCTTGGAATGGAGTTCTGTGCTGAGAGCCCCCAGTGGCTGTATAAG

Basic information

species Oryza sativa
transcript LOC_Os02g17500.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g17500.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G412899_T01 (Zea mays), 3'ss of exon 2
gttagatgctttcttctgtagctctctacatgttttgtgtagttagtaaatctga--tgcatcta----actttatcctttgctattaacagGTGGAGGGTGTGTTTCTGGGTTGCAGCTGTTCCAGCAACTTTACAAGCTCTTGGAATGGAGTTCTGTGCTGAGAGCCCCCAGTGGCTGTATAAG
|| ||| ||| |||| |  ||  || ||||||  |  || ||||| ||  | |||  |  ||||     | | | |   ||||  ||  ||||||||| ||||||||||||||||| | | | |||||||||||||||||||| || |||||||| |||||||||||||| |||||||| ||||||
gtgagaagctctctttt--agtcctttacatgcctcttgaagttaatatttgtgaaatttatctgtaccaatgtttttattgccgttggcagGTGGAGAGTGTGTTTCTGGGTTGCCGTTATCCCAGCAACTTTACAAGCTCTCGGTATGGAGTTTTGTGCTGAGAGCCCTCAGTGGCTTTATAAG
















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|29643521|gb|CB648528.1|CB648528
EST:     ATCGTAGTATCTCTCCTAATTGGTACACCTGTGAAGGATATTGATAGATG                         GTGGAGGGTGTGTTTCTGGGTTGCAGCTGTTCCAGCAACTTTACAAGCTCT
genomic: ATCGTAGTATCTCTCCTAATTGGTACACCTGTGAAGGATATTGATAGATGgttagatgct ... ctattaacagGTGGAGGGTGTGTTTCTGGGTTGCAGCTGTTCCAGCAACTTTACAAGCTCT
EST: gi|88362011|gb|CI607011.1|CI607011
EST:     ATCGTAGTATCTCTCCTAATTGGTACACCTGTGAAGGATATTGATAGATG                         GTGGAGGGTGTGTTTCTGGGTTGCAGCTGTTCCAGCAACTTTACAAGCTCT
genomic: ATCGTAGTATCTCTCCTAATTGGTACACCTGTGAAGGATATTGATAGATGgttagatgct ... ctattaacagGTGGAGGGTGTGTTTCTGGGTTGCAGCTGTTCCAGCAACTTTACAAGCTCT
EST: gi|218499348|gb|FG943597.1|FG943597
EST:     ATCGTAGTATCTCTCCTAATTGGTACACCTGTGAAGGATATTGATAGATG                         GTGGAGGGTGTGTTTCTGGGTTGCAGCTGTTCCAGCAACTTTACAAGCTCT
genomic: ATCGTAGTATCTCTCCTAATTGGTACACCTGTGAAGGATATTGATAGATGgttagatgct ... ctattaacagGTGGAGGGTGTGTTTCTGGGTTGCAGCTGTTCCAGCAACTTTACAAGCTCT
EST: gi|218498315|gb|FG958350.1|FG958350
EST:     ATCGTAGTATCTCTCCTAATTGGTACACCTGTGAAGGATATTGATAGATG                         GTGGAGGGTGTGTTTCTGGGTTGCAGCTGTTCCAGCAACTTTACAAGCTCT
genomic: ATCGTAGTATCTCTCCTAATTGGTACACCTGTGAAGGATATTGATAGATGgttagatgct ... ctattaacagGTGGAGGGTGTGTTTCTGGGTTGCAGCTGTTCCAGCAACTTTACAAGCTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttgtgtagttagtaaatctgatgcatctaactttatcctttgctattaacagGTGGAGGGTGTGTTTCTGGGTTGCAGCTGTTCCAGCAACTTTACAAGCTCTTGGAATGGAGTTCTGTGCTGAGAGCCCCCAGTGGCTGTATAAG
                           atctaac  putative branch site (score: 2)
                                 ctttatcctttgct  CT-rich tract
           ttagtaaat  TA-rich tract