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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaacactttctaacgatacaaatggacttctttttttaaaaaaaagagattgtcagccatgcagctcttaatctgctgcttcatgtttctaattgcatcagTTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAAAACAGTGGCCAGAAAGTAAATTATGTGAATGATGACCGCTTCTATAGCG

Basic information

species Oryza sativa
transcript LOC_Os01g22550.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g22550.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G160958_T01 (Zea mays), 3'ss of exon 6
gtaacaacactttctaacgatacaaatggacttctttttttaaaaaaaagagattgtcagccatgcagctcttaatctgctgcttcatgtttctaattgcatcagTTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAAAACAGTGGCCAGAAAGTAAATTATGTGAATGATGACCGCTTCTATAGCG
|||  || |    | | | | | |     |  | || |  ||     |   | | | ||   ||||| ||||  ||    ||       |||         |||| | |||||||||||||| |||||||||||||| ||||| ||||||||||| |||||||| ||| |||||||   ||||| ||||||||| ||||| |  |
gtaggaa-ataaaccagcaacatattcacaggt-ttctcatagtgttatttgttaggcattgatgcaactctggattgattgtgctgccttt---------tcagCTTTTCAAACTTGAAGACGTGGCAATGGGTATTTGGATCCAACAGTACAAGAACAGTGGGCAGCAAGTAAACATTGTGACTGATGACCGGTTCTACAATG
















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|88902631|gb|CI088169.1|CI088169
EST:     GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAG                         TTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
genomic: GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAGgtaacaacac ... attgcatcagTTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
EST: gi|89180327|gb|CI044606.1|CI044606
EST:     GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAG                         TTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
genomic: GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAGgtaacaacac ... attgcatcagTTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
EST: gi|58676893|gb|CK065580.1|CK065580
EST:     GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAG                         TTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
genomic: GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAGgtaacaacac ... attgcatcagTTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
EST: gi|88226570|gb|CI226486.1|CI226486
EST:     GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAG                         TTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA
genomic: GGGACATTGCAAAGTTTATTGTTCATGGTCATCAAGAACGAACTCTTCAGgtaacaacac ... attgcatcagTTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agattgtcagccatgcagctcttaatctgctgcttcatgtttctaattgcatcagTTATTCAAACTTGAAGATGTGGCAATGGGTATCTGGATACAACAGTACAAAAACAGTGGCCAGAAAGTAAATTATGTGAATGATGACCGCTTCTATAGCG
                                        ttctaat  putative branch site (score: 2)
                                       tttctaatt  TA-rich tract