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

ACCAGAGGGGTCTTCTGGCTCGCAAAGGGGAGCTCCCCCGGCACCTGATGCAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttcttttttttttcgcgcagctaaaagcatgatatgtgctctctttttgtgcatcacttatgtttaactgtactattcttacgtacacaactgtaatgtgatgtgcag

Basic information

species Oryza sativa
transcript LOC_Os09g33810.4
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g33810.5 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM5G800734_T02 (Zea mays), 5'ss of exon 2
ACCAGAGGGGTCTTCTGGCTCGCAAAGGGGAGCTCCCCCGGCACCTGATGCAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttcttt----tttttttcgcgcagctaaaagcatgatatgtgct-ctctttttgtgcatcacttatgtt--taactgtactattcttacgtacac----aactgtaatgtgatgtgcag-----------------------
|  ||||      |        | |  |    |  |  | ||| ||| ||||||||| |||||||| ||||||||||||    | ||||||||||||||||||  |   ||    ||   ||        |  |   |  || |  | | ||  | |||| |||   || |  |     ||| || |   | |  | ||     || ||| |  |    |  ||                       
ATGAGAGCAAAAATTCAAA--ACCAGAGAAGCCATCTTCAGCAGCTGGTGCAGGCCTCCCCAATCCGTTTGATTTTTCTTCTATGAGCAACTTGCTCAATgtatctctcttgctattgccttaatatgttttgattaagaatttaagatgcttatgttgtacatagttttttctgccggctgaaccacattcagattcatttggaattgttaattttactatagtgttgtatgctcgtcatgtgcag
















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|55828232|gb|AU068959.2|AU068959
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|58608747|gb|CK036780.1|CK036780
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|29662509|gb|CB658784.1|CB658784
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|88760364|gb|CI769920.1|CI769920
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGG
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGG
EST: gi|1631432|gb|C19161.1|C19161
EST:     CAGGCCTTGCCAATCCTTTTGATTTTTCTCAGTTTAGCAANTTGCTCAAT                         GATCCATCTATAAAGGAGAT
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGAT
EST: gi|88358556|gb|CI617642.1|CI617642
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGGAGATTG-AAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|27554079|gb|CA997979.1|CA997979
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|88720913|gb|CI744212.1|CI744212
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAA
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAA
EST: gi|29670241|gb|CB666516.1|CB666516
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|29613548|gb|CB618561.1|CB618561
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|88313743|gb|CI597374.1|CI597374
EST:     CAGGC-TTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|88690767|gb|CI734846.1|CI734846
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATNCATCTATAAAGGAGATGGCAGAGCAG
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAG
EST: gi|29658731|gb|CB655006.1|CB655006
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|88360017|gb|CI608531.1|CI608531
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|33684353|gb|CF312592.1|CF312592
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|218480322|gb|FG970039.1|FG970039
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|88395378|gb|CI611295.1|CI611295
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATC-ATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|88358223|gb|CI605148.1|CI605148
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|569734|gb|D40583.1|D40583
EST:     CAGGCCTTNCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGG
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGG
EST: gi|29617932|gb|CB622944.1|CB622944
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|29627631|gb|CB632642.1|CB632642
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|88356737|gb|CI619223.1|CI619223
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCA
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCA
EST: gi|117234746|gb|CT847861.1|CT847861
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|218481521|gb|FG960926.1|FG960926
EST:     CAGGCCTTCCCAATCCTTGTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|88731883|gb|CI753393.1|CI753393
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTG
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTG
EST: gi|88329332|gb|CI653246.1|CI653246
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|58675502|gb|CK064189.1|CK064189
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|29636054|gb|CB641063.1|CB641063
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|58592381|gb|CF990689.1|CF990689
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|8859951|gb|AU097269.1|AU097269
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|86901754|gb|CI310516.1|CI310516
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATNAAGGAGATGGCAGAGCAGATTGCAAGCGACCCT
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCT
EST: gi|29688694|gb|CB684969.1|CB684969
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|88356902|gb|CI620790.1|CI620790
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
EST: gi|88762075|gb|CI771631.1|CI771631
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGC
EST: gi|88411125|gb|CI606344.1|CI606344
EST:     CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAAT                         GATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC
genomic: CAGGCCTTCCCAATCCTTTTGATTTTTCTCAGTTTAGCAACTTGCTCAATgtaagttctt ... tgatgtgcagGATCCATCTATAAAGGAGATGGCAGAGCAGATTGCAAGCGACCCTGTGTTC