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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGTGTATGCTATCTTGCATCGACAAGAGGTATTTCAGCCATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACAgtatgtgttattgcttttcttacatgaacttgccaaagtacaaatacagaataatcaactaaggtttcctttccacaatctcaccatgttatgaatttgtctggaag

Basic information

species Oryza sativa
transcript LOC_Os01g56630.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56630.1 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G079389_T01 (Zea mays), 5'ss of exon 14
GTCGTGTATGCTATCTTGCATCGACAAGAGGTATTTCAGCCATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACAgtatgtgttattgcttttcttacatgaacttgccaaagtacaaatacagaataatcaactaaggtttcctttccacaatctcaccatgttatgaatttgtctggaag
|| ||||||||| | ||||||||||||||||| ||| ||||||| ||||||||||| || |||| |||| |||||||||| || ||||||||||||  ||  | || |||  | ||| ||| |  |||||||    ||     ||   | |     | ||   |||| | |    ||| || || |  || ||  ||
GTTGTGTATGCTGTATTGCATCGACAAGAGGTGTTTGAGCCATTTAAAAACCATCCACGTTTCAGTGAACTGCTTGAGAACATATACACAgtatgt--taccgattatctctcgtgatctttcagaagtaca----caattctattttccaga---ttctcatcacattgt----atgctacgagt--gtttgatag

upper sequence: LOC_Os01g56630.1 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G078576_T04 (Zea mays), 5'ss of exon 14
GTCGTGTATGCTATCTTGCATCGACAAGAGGTATTTCAGCCATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACAgtatgtgttattgcttttcttacatgaacttgccaaagtacaaatacagaataatcaactaaggtttcctttccacaatctcaccatgttatgaatttgtctggaag
|| || |||||| | ||||||||||||||||| ||| ||||||| ||||| ||||| || || |||||| |||||||||| || ||||| |||||||||||||  ||| || |   |||||       || || |||| | ||||| | |     ||||        |||  |  || || |||   ||||||  ||
GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACTgtatgtgttattg--tttattgc---aacttt------tataagtacacattaatctatt-----ttccagattctcatcatattatattctgag--tgtctgatag

upper sequence: LOC_Os01g56630.1 (Oryza sativa), 5'ss of exon 14
lower sequence: GLYMA20G28880.1 (Glycine max), 5'ss of exon 13
GTCGTGTATGCTATCTTGCATCGACAAGAGGTATTTCAGCCATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACAgtatgtgttat---tgcttttcttacatgaacttgccaaagtaca--aatacagaataatcaactaaggtttc----------ctttccacaatctc--accatgtta-tgaa-tttgtctggaag------------------------------------------------------
|| |||||||| ||  ||||  | || || || |||||||||||||| || ||||| || ||||||||| || |||| || ||||| || |||||||| ||   || |||  ||| |||||  | ||||| ||     |  |     ||||   |||  |||            |||   | ||||     ||  ||| ||||  ||||||                                                           
GTAGTGTATGCAATAATGCACAGGCAGGAAGTCTTTCAGCCATTCAAGAATCATCCACGTTTCAATGAACTGATTGATAACATTTATACTgtatgtgtcatatatgttttatttaaatgaaagtaccaaaatatgctgaccctttgcaatcttgtaacttttaaaggagcaagttttgtgctatctttagtcacattaatgaagcttgtctttgtataataaatcatgtttctcaagtgtgtgcaaaatgtatctattaaatatttacag

upper sequence: LOC_Os01g56630.1 (Oryza sativa), 5'ss of exon 14
lower sequence: GLYMA10G38920.2 (Glycine max), 5'ss of exon 14
GTCGTGTATGCTATCTTGCATCGACAAGAGGTATTTCAGCCATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACAgtatgtgttat-tgcttttcttacatgaacttgccaaagtacaaatacagaataatcaacta-aggtttcctttccaca-atctcaccatgttatgaatttgtctggaag
|| |||||||| ||  ||||  | || || || |||||||||||||| || ||||| |||||||||||| || |||| || ||||| || |||||||| || |   ||| |||  |  |  |||  || |   | | |   ||  | || || ||   |    ||| || || | |  ||  ||| | |||         
GTAGTGTATGCAATAATGCACAGGCAGGAAGTCTTTCAGCCATTCAAGAATCATCCACGCTTCAATGAACTGATTGATAACATTTATACTgtatgtgtcatatatattttttaggtttaaatgc--aattttgattcccttattttaaaatagagacatttagtcctcatattttaatat-ctataattttag-------

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|426809|gb|D22882.1|D22882
EST:     CATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACA                         GTGTTGGATTTCTTCAATAGTCGAATGGNCATGCAGCAGTTAGATGGNGAA
genomic: CATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACAgtatgtgtta ... tgtctggaagGTGTTGGATTTCTTCAATAGTCGAATGGACATGCAGCAGTTAGATGGAGAA
EST: gi|58678344|gb|CK067031.1|CK067031
EST:     CATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACA                         GTGTTGGATTTCTTCAATAGTCGAATGGACATGCAGCAGTTAGATGGAGAA
genomic: CATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACAgtatgtgtta ... tgtctggaagGTGTTGGATTTCTTCAATAGTCGAATGGACATGCAGCAGTTAGATGGAGAA
EST: gi|5004229|gb|AU069378.1|AU069378
EST:     GAGAATATTTACACA                         GTGTTGGATTTCTTCAATAGTCGAATGGACATGCAGCAGTTAGATGGAGAA
genomic: GAGAATATTTACACAgtatgtgtta ... tgtctggaagGTGTTGGATTTCTTCAATAGTCGAATGGACATGCAGCAGTTAGATGGAGAA
EST: gi|29639051|gb|CB644060.1|CB644060
EST:     CATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACA                         GTGTTGGATTTCTTCAATAGTCGAATGGACATGCAGCAGTTAGATGGAGAA
genomic: CATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACAgtatgtgtta ... tgtctggaagGTGTTGGATTTCTTCAATAGTCGAATGGACATGCAGCAGTTAGATGGAGAA
EST: gi|5004218|gb|AU069367.1|AU069367
EST:     GAGAATATTTACACA                         GTGTTGGATTTCTTCAATAGTCGAATGGACATGCAGCAGTTAGATGGAGAA
genomic: GAGAATATTTACACAgtatgtgtta ... tgtctggaagGTGTTGGATTTCTTCAATAGTCGAATGGACATGCAGCAGTTAGATGGAGAA
EST: gi|86497820|gb|CI140453.1|CI140453
EST:     TCAATGAATTGCTTGAGAATATTTACACA                         GTGTTGGATTTCTTCAATAGTCGAATGGACATGCAGCAGTTAGATGGAGAA
genomic: TCAATGAATTGCTTGAGAATATTTACACAgtatgtgtta ... tgtctggaagGTGTTGGATTTCTTCAATAGTCGAATGGACATGCAGCAGTTAGATGGAGAA