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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTGGACTAGAGAATGGCATTCAGGAATTCGGGTCCATAAAGACGGTGCTTACATCTGGTTGGCTGCGGGATGAGAACTCTTTCCAACAGCCTGACAAGgtttgctacatttatttgattcactgaaatttgatttttttttttctgaatgaaaatgcacttccaaatatgagatgatgaatggttctttcgtagctcc...

Basic information

species Oryza sativa
transcript LOC_Os03g20420.3
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g20420.2 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G180889_T01 (Zea mays), 5'ss of exon 5
AGCTGGACTAGAGAATGGCATTCAGGAATTCGGGTCCATAAAGACGGTGCTTACATCTGGTTGGCTGCGGGATGAGAACTCTTTCCAACAGCCTGACAAGgtttgctac-atttatttgattcactgaaatttgatttttttttttctgaatgaaaatgcacttccaaatatgagatgatgaatggttctttcgtagctcc
| ||||  | || | ||  ||||||  ||| || |||||||||||||| || || || ||||||||||||||||||||||| ||||||||||| ||||||||||| |||  |  | ||||| || || |   ||      |    ||   |||   ||    |    |||  |   || |   || || |           
AACTGGGTTGGAAACTGATATTCAGACATTTGGATCCATAAAGACGGTTCTCACGTCGGGTTGGCTGCGGGATGAGAACTCCTTCCAACAGCCCGACAAGgtttgatactgtggacttgatacagtgca---tggcaaactaagatcaatatggtgattacatcttgaattagttgtgttcg-tgattatag---------

upper sequence: LOC_Os03g20420.2 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G120132_T01 (Zea mays), 5'ss of exon 5
AGCTGGACTAGAGAATGGCATTCAGGAATTCGGGTCCATAAAGACGGTGCTTACATCTGGTTGGCTGCGGGATGAGAACTCTTTCCAACAGCCTGACAAGgtttgctac-atttatttgattcactgaaatttgatttttttttttctgaatgaaaatgcacttccaaata----tgagatgatgaatgg-ttctttcgtagctcc
| || |  | || | ||  ||||||  ||| || || |||||||| || || || || ||||||||||||||||||||||| ||||||||||| ||||||||||| |||  || ||||||| || || |     | |        |  |      | | | | |  || ||    ||   |||||  ||  |||||  |       
AACTAGGTTGGAAACTGATATTCAGACATTTGGATCTATAAAGACAGTTCTCACGTCGGGTTGGCTGCGGGATGAGAACTCCTTCCAACAGCCCGACAAGgtttgatactgttgatttgatacaatgcatggcaactaagagcaatacggtaatgattaccccttgaattagttgtgttgtgatgtctgaattcttgtgctatag-

upper sequence: LOC_Os03g20420.2 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G131440_T01 (Zea mays), 5'ss of exon 8
AGCTGGACTAGAGAATGGCATTCAGGAATTCGGGTCCATAAAGACGGTGCTTACATCTGGTTGGCTGCGGGATGAGAACTCTTTCCAACAGCCTGACAAGgtttgctac-atttatttgattcactgaaatttgatttttttttttctgaatgaaaatgcacttccaaata----tgagatgatgaatggttctttcgtagctcc--
| | ||  | || | ||  ||||||  ||| || |||||||||||||| || |  || ||||||||||||||||||||||| ||||||||||| ||||||||||| ||   |  ||||||| |   | |     | |        |  |      | | | | |  |||||    ||   |||||  ||   || | || |||    
AACAGGGTTGGAAACTGATATTCAGACATTTGGATCCATAAAGACGGTTCTCATGTCGGGTTGGCTGCGGGATGAGAACTCCTTCCAACAGCCCGACAAGgtttgatattgtcgatttgatacgacgcatggcaactaagagcaatacggtaatgattaccccttgaaatagttgtgttgtgatgtctgaa-ctcttgt-gctatag

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|22306425|gb|BQ907647.1|BQ907647
EST:     AACATCTGGTT-GCTCGCGGGATGAGAACTCTTTCCAACAGCCTGACAAG                         GT-GTGCCGGCGGCAAGCCCCATAACCAACGCGGGCGAGCAGATGGGTGTC
genomic: TACATCTGGTTGGCT-GCGGGATGAGAACTCTTTCCAACAGCCTGACAAGgtttgctaca ... aatgctacagGTGGTGCCGGCGGCAAGCCCCATAACCAACGCGGGCGAGAAGATGGGTGTC
EST: gi|55411122|gb|CV723498.1|CV723498
EST:     TTACATCTGGTTGGCTGCGGGATGAGAACTCTTTCCAACAGCCTGACAAG                         GTGGTGCCGGCGGCAAGCCCCATAACCAACGCGGGCGAGAAGATGGGTGTC
genomic: TTACATCTGGTTGGCTGCGGGATGAGAACTCTTTCCAACAGCCTGACAAGgtttgctaca ... aatgctacagGTGGTGCCGGCGGCAAGCCCCATAACCAACGCGGGCGAGAAGATGGGTGTC
EST: gi|86528047|gb|CI168253.1|CI168253
EST:     CAGCCTGACAAG                         GTGGTTCCGGCGGCAAGCCCCATAACCAACGCGGGCGAGAAGATGGGTGTC
genomic: CAGCCTGACAAGgtttgctaca ... aatgctacagGTGGTGCCGGCGGCAAGCCCCATAACCAACGCGGGCGAGAAGATGGGTGTC
EST: gi|29645169|gb|CB650176.1|CB650176
EST:     TTACATCTGGTTGGCTGCGGGATGAGAACTCTTTCCAACAGCCTGACAAG                         GTGGTGCCGGCGGCAAGCCCCATAACCAACGCGGGCGAGAAGATGGGTGTC
genomic: TTACATCTGGTTGGCTGCGGGATGAGAACTCTTTCCAACAGCCTGACAAGgtttgctaca ... aatgctacagGTGGTGCCGGCGGCAAGCCCCATAACCAACGCGGGCGAGAAGATGGGTGTC