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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTCCTCGTGGAATATTTTGCACCAGGACACTAAATCTTCGATCCATCAGTGTCATTGGCTATGATATGGACTATACATTGATTCACTACAATGTGATGgtacttcaatatctatatcatcaaattgtctacgaatcattctaaagtagatgattacatatgtacaaaattttacatatttgttgaactgatatgacat...

Basic information

species Oryza sativa
transcript LOC_Os01g14810.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g14810.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G044819_T03 (Zea mays), 5'ss of exon 3
CTCTCCTCGTGGAATATTTTGCACCAGGACACTAAATCTTCGATCCATCAGTGTCATTGGCTATGATATGGACTATACATTGATTCACTACAATGTGATGgtacttcaatatctatatcatcaaattgtctacgaatcattctaaagtagatgattacatatgtacaaaattttacatatttgttgaactgatatgacat--
||||||||||||||| || |||||||||||||||||||||||||| ||||||||  ||||||| ||||||||||||||||| ||||| ||||||||||||||||||||    | || |  |  | | | |||  ||   |||| |  ||     || ||  | |  |||||| |  | || |||||| ||||| ||||    
CTCTCCTCGTGGAATTTTCTGCACCAGGACACTAAATCTTCGATCTATCAGTGTAGTTGGCTACGATATGGACTATACATTAATTCATTACAATGTGATGgtacttcatggcccatttttttgattcgcctataaacttttctga--tacccagttgcacttttcgaaaattctgtaaatatgttgagctgatttgaccggt

upper sequence: LOC_Os01g14810.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA17G04580.1 (Glycine max), 5'ss of exon 3
CTCTCCTCGTGGAATATTTTGCACCAGGACACTAAATCTTCGATCCATCAGTGTCATTGGCTATGATATGGACTATACATTGATTCACTACAATGTGATGgtacttcaatatctatatcatcaaattgtct--acgaatcattctaaagtagatgatt--acatatgtacaaaattttacatatttgttgaactgatatgacat
 || |||||||||||||| |||| | | ||| | ||| | || ||||| |||| |||||| ||||| ||||||||||| ||||| || || |||||||||||||     | |       | || || ||||  | |||  ||  |||     || | |   || |     | || ||    | ||   |   |   | ||    
TTCGCCTCGTGGAATATTCTGCAGCCGTACATTGAATTTGCGGTCCATTAGTGCCATTGGATATGACATGGACTATACCTTGATCCATTATAATGTGATGgtacacttctgttccatgtaccatatagtctgtatgaactataataactctaatcacttagcacacaactataacttcctttgttcaattttcaattgtg----

upper sequence: LOC_Os01g14810.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA13G17950.1 (Glycine max), 5'ss of exon 3
CTCTCCTCGTGGAATATTTTGCACCAGGACACTAAATCTTCGATCCATCAGTGTCATTGGCTATGATATGGACTATACATTGATTCACTACAATGTGATGgtacttcaatatctatatcatcaaattgtctacgaatcattctaaagtagatgattacatatgtacaaaattttacatatttgttgaactgatatgacat---
 || |||||||||||||| |||| | | ||| | ||| | || ||||| |||| |||||| ||||| ||||||||||| ||||| || || |||||||||||||     | |       |||| || ||||       | | || | |   | |  |   |  || | ||||||   | |  | |  ||     |   ||   
TTCGCCTCGTGGAATATTCTGCAGCCGTACATTGAATTTGCGGTCCATTAGTGCCATTGGATATGACATGGACTATACCTTGATCCATTATAATGTGATGgtacgcttctgttccatgtatcatatagtctgtatga-actatataatcattaagcatgcagctaaataattttt--tttgcggtagaccacctttttatgtt

upper sequence: LOC_Os01g14810.2 (Oryza sativa), 5'ss of exon 3
lower sequence: AT5G48960.1 (Arabidopsis thaliana), 5'ss of exon 3
CTCTCCTCGTGGAATATTTTGCACCAGGACACTAAATCTTCGATCCATCAGTGTCATTGGCTATGATATGGACTATACATTGATTCACTACAATGTGATGgtacttcaatatctatatcatcaaat-tgtctacgaatcattctaaagtagatgattacatatgtacaaaattttacatatttgttgaactgatatgacat
||||||||| || |||||||| |   | ||| | |||||||| ||||| ||||  ||||| ||||||||||| || || ||||| ||||||||||| |||||     | |   |   |  ||| |  |   || ||| ||||      ||       | || || |    | ||||     ||||| |             
CTCTCCTCGGGGTATATTTTGTAGTCGTACATTGAATCTTCGGTCCATTAGTGCAATTGGATATGATATGGATTACACTTTGATGCACTACAATGTCATGgtg----agttcttcctttctcagacataagtaggaaacatt------tatgcacccatatttg-atgctaatttatggtcttgttcag------------

upper sequence: LOC_Os01g14810.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv05s0020g00880.t01 (Vitis vinifera), 5'ss of exon 3
CTCTCCTCGTGGAATATTTTGCACCAGGACACTAAATCTTCGATCCATCAGTGTCATTGGCTATGATATGGACTATACATTGATTCACTACAATGTGATGgta-cttcaa----tatctatatcatc---aaattgtctacgaatcattctaaagtagatgattacatatgtacaaaattttacatatttgttgaactgatatgacat
 || || ||||| |||||||| | | | ||| | |||||||| || ||||||| |||||| ||||| |||||||| || ||||| ||||| |||||||||||| | ||||    | | | ||| ||    | |  | ||  | ||  || || ||   |     ||  |     |||| | ||||    | || | |  | || |   
TTCACCACGTGGCATATTTTGTAGCCGTACATTGAATCTTCGGTCAATCAGTGCCATTGGATATGACATGGACTACACCTTGATGCACTATAATGTGATGgtaacgtcaacttgtttttgtattatgttaagaggggctttggat--ttttagagataactcaaacccaaactaaaaagtatacaa---tatttagcaaacatca---

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|29627736|gb|CB632747.1|CB632747
EST:     GTGTCATTGGCTATGATATGGACTATACATTGATTCACTACAATGTGATG                         GCTTGGGAAGGGCGTGCTTATGATTATGGTATGGCCAATCTGAAGGGCATG
genomic: GTGTCATTGGCTATGATATGGACTATACATTGATTCACTACAATGTGATGgtacttcaat ... atctatgcagGCTTGGGAAGGGCGTGCTTATGATTATGGTATGGCCAATCTGAAGGGCATG