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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATGATATAAGATCAAGACTTCTTGATAATCTTTCAAAACTTCGACATGCTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAGgtgagtgagaaattattggcattatggttcttttttgtcctgtagaattcctcagcttcaaggataaaggagtataaggcgtctttctagtagttgctgt...

Basic information

species Oryza sativa
transcript LOC_Os06g38470.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g38470.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G081474_T01 (Zea mays), 5'ss of exon 3
GGATGATATAAGATCAAGACTTCTTGATAATCTTTCAAAACTTCGACATGCTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAGgtgagtgagaaattattggcattatggttcttttttgtcctgtaga----attcctcagcttcaaggataaaggagtataaggcgtctttctagtagttgctgt
|||||| |||| ||||| |||||| ||||||||||||||||| |||||||||||||| || || |||||||||||||| |||||||||||| |||||||||||||       |||   | |  |   ||   ||   |  ||| |     || | | |   | |   |  ||  | || ||||| | |||     || |     
GGATGACATAAAATCAAAACTTCTAGATAATCTTTCAAAACTCCGACATGCTCCTAGTGTTCAGTTTCAAGAGCGACCTCCTGAGGCTGAGTTACCTGAGgtgaggattctgttacaagaaa-aaaatttaattgcatgatgttgcttttatcctttaaaataagccaggaacaaatacaaggcatatttagtagagctag---

upper sequence: LOC_Os06g38470.3 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv03s0038g04240.t01 (Vitis vinifera), 5'ss of exon 3
GGATGATATAAGATCAAGACTTCTTGATAATCTTTCAAAACTTCGACATGCTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAGgtgagtgagaa--attattggc--attatggttcttttttgtcctgtagaattcctcag-cttcaaggata----aaggagtataaggcgtctttctagtagttgctgt
|||||| |||||  | |  |||||||||||||| ||||||||||||||||| || |||||||| ||||||||| ||||||| ||  | ||||| || |||||| ||    |    |||       |||   | | ||  |  |   |  |||    ||| | ||||    |    ||  | |||||    | | | |  |         
GGATGAAATAAGGGCTAAGCTTCTTGATAATCTGTCAAAACTTCGACATGCACCCAGCGTCCAGTTTCAAGAGAGACCCCCAGATACCGAGCTCCCAGAGgtgtgtttctaccgctatcattttgttaatatgcattcattcctcttgcaatcttccagtcctcaatttcatttcaacaaatataaaaaatatatttttt---------

upper sequence: LOC_Os06g38470.3 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv14s0006g01820.t01 (Vitis vinifera), 5'ss of exon 4
GGATGATATAAGATCAAGACTTCTTGATAATCTTTCAAAACTTCGACATGCTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAGgtgagtgagaaattattggcattatggttcttttttgtcc-tgtagaattcctcagcttcaag--gataaaggagtataaggcgtctttctagtagttgctgt-
|||||| |||||  | |  ||||| || ||||| |||| |||| ||||||| ||||| ||||||||||| ||  ||||||||||  | ||||| ||||||||| ||  |    ||  | ||| ||  |     | |||   | |   ||||||||  |        | ||| |   | || | | || | |  |  |||  |  
GGATGAAATAAGGGCTAAGCTTCTCGACAATCTATCAACACTTAGACATGCACCTAGTGTCCAATTTCAGGAAAGACCCCCTGATACAGAGCTCCCTGAGgtgcgtttg----taccgccatcattttatgaatgtgtatatcttccattcctcatttgtgtttcaacaaatggaaaaaaaggggctcttttttccttgtagaa

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|58674694|gb|CK063381.1|CK063381
EST:     TGAGGCTGAGCTACCTGAG                         CAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT
genomic: TGAGGCTGAGCTACCTGAGgtgagtgaga ... tctcgtgcagCAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT
EST: gi|5455320|gb|AU075563.1|AU075563
EST:     CCTAGCGTCCAATTTTNAAGAGCGACCCCCCTGAGNCTGAGCTACCTGAG                         CAAGATGACGACCAAGAGGATCCTGATGAAAGNCACCATGCTGATTCTGAT
genomic: CCTAGCGTCCAA-TTTCAAGAGCGA-CCCCCTGAGGCTGAGCTACCTGAGgtgagtgaga ... tctcgtgcagCAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT
EST: gi|29685767|gb|CB682042.1|CB682042
EST:     CTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAG                         CAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT
genomic: CTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAGgtgagtgaga ... tctcgtgcagCAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT
EST: gi|163920649|gb|EG709991.1|EG709991
EST:     CTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAG                         CAAGATGAAGACCAAGAGGATCCTGATGAAAGGCATCATGCTGATTCTGAT
genomic: CTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAGgtgagtgaga ... tctcgtgcagCAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT
EST: gi|87009873|gb|CI277374.1|CI277374
EST:     CTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAG                         CAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT
genomic: CTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAGgtgagtgaga ... tctcgtgcagCAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT
EST: gi|86499424|gb|CI142057.1|CI142057
EST:     CTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAG                         CAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT
genomic: CTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAGgtgagtgaga ... tctcgtgcagCAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT
EST: gi|29680280|gb|CB676555.1|CB676555
EST:     CTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAG                         CAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT
genomic: CTCCTAGCGTCCAATTTCAAGAGCGACCCCCTGAGGCTGAGCTACCTGAGgtgagtgaga ... tctcgtgcagCAAGATGAAGACCAAGAGGATCCTGATGAAAGGCACCATGCTGATTCTGAT