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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCTTGGTGGGATGAGAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgtaaactataatgctacgataccataatggcataatatagaagcaaatttggatattttgtctatgtatatcttgaaattggaatgtgcaaa...

Basic information

species Oryza sativa
transcript LOC_Os02g10070.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G064023_T04 (Zea mays), 5'ss of exon 6
GTCCTTGGTGGGATGAGAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgtaaactataatgctacgataccataatggcataatatagaagcaaatttggatattttgtctatgtatatcttgaaattggaat--gtgcaaa
||||||||||| ||||||||||||| |||||||||||||||||||||  | |||||||| || ||||||  |||| |  |         | ||| | ||  | ||||| |  | | |   | |   |  || || | || | ||||   ||  || |    || | ||
GTCCTTGGTGGAATGAGAGGGATGATTGGAATGCTTTGGGAAACATCCCTACTTGACCCAGAGGAGgtaatcttgcatgcatcctcttcatgatgctatgttagcatagtccata-gtgtactattagcttgtgcccat-tctatcaaaaatatgtacacagttccaa

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G063909_T03 (Zea mays), 5'ss of exon 5
GTCCTTGGTGGGATGAGAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgtaaactataatgctacgataccataatggcataatatagaagcaaatttggatattttgtctatgtatatcttgaaattggaatgtgcaaa-
||||||||||| ||||||||||| | ||||||||||||||| |||||  |  | ||||| || ||||||  | || |  |         | | | | ||  | ||||| | ||  |  |        |      |||| ||  |   ||       | | | |||| 
GTCCTTGGTGGAATGAGAGGGATCATTGGAATGCTTTGGGAGACATCCCTAGTCGACCCAGAGGAGgtaatcctgcatgcatcctcttcatggtgctatgttagcatagtgtactattatcagcttgtgcccattctacgtcaaaaatgtgtacacagt-tccaaat

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G063851_T04 (Zea mays), 5'ss of exon 6
GTCCTTGGTGGGATGAGAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgtaaactataatgctacgataccataatggcataatatagaagcaaatt-tggatattttgtctatgtatatcttgaaattggaatgtgcaaa
||||||||||| |||||||||||||||||||||||||||||||||||  | ||||| || || ||||||  |||| || |         | ||| | ||  | ||||| | ||  |  |  |  ||   | | | | |    |||| |  |   |   |  |  || 
GTCCTTGGTGGAATGAGAGGGATGACTGGAATGCTTTGGGAAACATCCCTACTTGATCCAGAGGAGgtaatcttgcaagcatcctcttcatgatgctatgttagcatagtgtactattagctcgtgcccactctatgtcaaaatatgtacactgttccaaatttaa-

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT2G44350.2 (Arabidopsis thaliana), 5'ss of exon 6
GTCCTTGGTGGGATGAGAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgtaaac-----tataatgctacgataccataatggcataatatagaagcaaatttggatattttgtctatgtatatcttgaaattggaatgtgcaaa-------------------
||  ||||||| |||||||||||||||||| ||||||||||||| ||||||||||||||||| ||||||    | |||       ||||  | ||| ||| | |  |   ||  || | |   ||  |   | ||  |     |   | |  | |   ||     |||||                    
GTTATTGGTGGAATGAGAGGGATGACTGGATTGCTTTGGGAAACCTCATTGCTTGACCCGGAAGAGgtac-tgtataactctctgtatatagttacaatagcttggttagatcctagatatagaatatatcaaatgctcctccttcctgttctaaggctgttg-atgcaattatcttatcattatttcag

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT3G60100.1 (Arabidopsis thaliana), 5'ss of exon 5
GTCCTTGGTGGGATGAGAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgtaaactataatgctacgataccataatggcataatatagaagcaaatttggatattttgtctatgtatatcttgaaattggaatgtgcaaa
|| |||||||| |||||||||||||||||| | || |||||||| |||||||||||  | ||||||||||| || |||  |  |   |   ||||   |   ||    || | |||  | | ||  |||   | |     ||| | ||| |   |           
GTACTTGGTGGAATGAGAGGGATGACTGGATTACTCTGGGAAACCTCATTGCTTGATGCAGATGAGgtatggttataattttgatcacatagataattttcaggtcagatcttgaattagaattatataacatatgatattatcttttgtatcag-----------

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv13s0156g00180.t01 (Vitis vinifera), 5'ss of exon 6
GTCCTTGGTGGGATGAGAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgta----tgcttgtaaactataatgctacgataccataatggcataatatagaagcaaatttggatattttgtctatgtatatcttgaaatt--ggaatgtgcaaa----------------------------------------------------
|| |||||||| |||||||| ||||| ||  |||| |||||||| || ||||||||||| ||||| |||    | | | | |||   | |  |   |     | |||| ||  | |   |    ||||  ||   |  |  ||| || |   || ||   ||||  |    |                                                    
GTACTTGGTGGAATGAGAGGAATGACAGGGTTGCTGTGGGAAACCTCGTTGCTTGACCCAGATGAAgtaaatatcccttttaacc-cattcttgaaactttgttatgg-attcttttatattttattttaatgactgtttgatgaatgttgggacatgagggaagatttttatttttttttgggtttccaatttagttctgaaagttgagcttctgtttttcag

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|29614058|gb|CB619071.1|CB619071
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
EST: gi|58693317|gb|CK082004.1|CK082004
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
EST: gi|58658570|gb|CK047250.1|CK047250
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
EST: gi|88573691|gb|CI665460.1|CI665460
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
EST: gi|58599089|gb|CK009617.1|CK009617
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
EST: gi|29667252|gb|CB663527.1|CB663527
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
EST: gi|88400849|gb|CI616854.1|CI616854
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCT
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCT
EST: gi|58678175|gb|CK066862.1|CK066862
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
EST: gi|58611144|gb|CK038856.1|CK038856
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
EST: gi|29614020|gb|CB619033.1|CB619033
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
EST: gi|58695278|gb|CK083965.1|CK083965
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
EST: gi|58690828|gb|CK079515.1|CK079515
EST:     GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAG                         GGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG
genomic: GAGGGATGACTGGAATGCTTTGGGAAACATCATTGCTTGACCCGGATGAGgtatgcttgt ... tcctatccagGGTATTCGTTTTAGGGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCG