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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTACCGCTGGTGGTGCTTATATTCCGGCAATGGCTGATGAGAGTGTAATAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttctctgcctgccattttgattattcattttatgttttgcatggtgagatcttgagaactatccaatgttttcaaatcgcctatgcaccaata...

Basic information

species Oryza sativa
transcript LOC_Os08g32850.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G702490_T01 (Zea mays), 5'ss of exon 2
TTGTACCGCTGGTGGTGCTTATATTCCGGCAATGGCTGATGAGAGTGTAATAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttctctgcctgccattttgattattcattttatgttttgcatggtgagatcttgagaactatccaatgttttcaa--atcgcctat---gcaccaata-
||| || |||||||| || |||||||| |||||||| ||||||||||||||||| ||||||||||| || ||||||||||| |||||||||||||||||||| ||  |  ||||    |||||||| |||||   |  ||| |    ||  ||   |||    || | || ||| | || ||  | ||    |   ||  ||||| 
TTGCACTGCTGGTGGGGCATATATTCCTGCAATGGCGGATGAGAGTGTAATAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAGgtcagaatattctgga-accattttgtttattttctaaatgataaa-attttggtgtct----aaatctctaatatattaaagcaccggtcgtcccgcgtcaatat

upper sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA07G33620.1 (Glycine max), 5'ss of exon 2
TTGTACCGCTGGTGGTGCTTATATTCCGGCAATGGCTGATGAGAGTGTAATAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttctctgc-ctgccattttgattattcattttatgttttgca-----tggtgagatcttgagaacta---tccaatgttttcaaatcgcctatgcaccaata---------------------------------------------------------------------
||| || |||||||| ||||||||||| || ||||| ||||| ||||| || || ||||||||||| || || ||| |||| || ||||| ||||| |||||  |   |  || | ||   | | | |       | | ||  | |        |  |  | ||||||    ||   ||   |  ||| ||||   | ||     || |                                                                     
TTGCACTGCTGGTGGCGCTTATATTCCTGCTATGGCCGATGAAAGTGTGATGGTCAAGGGAAATGGCACCATTTTTTTAGCAGGGCCACCTCTTGTTAAGgtttgctctagctactcttgtactctaaaatactgtgtgataatctctggctatttctatgttcttgatttttaaaatctgtttcttttaaatt-tcaatattttaacactaacaatgtgtttgtgtattttctatgcatttataaccaaaattaaccttaattaaatgattttatag

upper sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA02G14860.1 (Glycine max), 5'ss of exon 2
TTGTACCGCTGGTGGTGCTTATATTCCGGCAATGGCTGATGAGAGTGTAATAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttctctgcc----tgcc-------attttgattattcattttatg----ttttgcatggtgagatcttgagaactatc------------caatgttttcaaatcgcctatgcaccaata-----------------------------------------------------
||| || |||||||| ||||||||||| || ||||||||||| ||||| || || ||||||||||| || || ||| |||| || ||||| ||||| ||||| ||   |  || |     |||         |||||  |  | || |   |    || |   |  |   || || | |  | |             |||| |||| | ||   | |||     ||                                                      
TTGCACTGCTGGTGGCGCTTATATTCCTGCTATGGCTGATGAAAGTGTGATGGTCAAGGGAAATGGTACCATTTTTTTAGCAGGGCCACCTCTTGTTAAGgttagctctagctactcttgtgctccaaaatgttttgtatgataatctctggctatttctatgttcttgaattttaaaatatgtttcttttaaatttcaatattttgacattaacaatgtgttgatgtattttttatgcatttatgaccaaaattaaaccttaattaaatgattttttag

upper sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 2
lower sequence: AT4G34030.1 (Arabidopsis thaliana), 5'ss of exon 3
TTGTACCGCTGGTGGTGCTTATATTCCGGCAATGGCTGATGAGAGTGTAATAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttctctgcctgccattttgattattcattttatgttttgcat--ggtgagatcttgagaactatccaatgttt--tcaaatcgcctatgcaccaata
 || || ||||||||||| || ||||| || ||||||||||| |||||||| || || || ||||| || |||||| |||| || || |||||||| ||||| | | |||||    | |  | |   |   ||  | |   | | |  |   ||    |||||||||   || || | |   | |||  || | || ||     
CTGCACTGCTGGTGGTGCCTACATTCCTGCCATGGCTGATGAAAGTGTAATGGTCAAAGGGAATGGTACCATATTTTTAGCAGGACCGCCACTTGTCAAGgtcaattttctcaagttactttctctctctctctctctcgttctagtcttaagtagtttcttgagaa---tctaacgctaaatgaaaaagcttttgaacag---

upper sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv03s0063g00290.t01 (Vitis vinifera), 5'ss of exon 3
TTGTACCGCTGGTGGTGCTTATATTCCGGCAATGGCTGATGAGAGTGTAATAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttctctgcctgccattttgattattcattttatgttttgcatggtgagatcttgagaactatccaatgtttt-caaatcgcctatgcaccaata----
|||||| ||||||||||||||||| || |||||||| ||||| ||||| || || || |||||||| || |||||||||||||| || |||||||| ||||| |||  ||     ||       ||  ||     || |||   ||   | ||   || | |    | |   ||||||| ||  |  |||    |   |||    
TTGTACTGCTGGTGGTGCTTATATACCTGCAATGGCGGATGAAAGTGTTATGGTCAAAGGAAATGGTACCATATTTCTAGCTGGGCCTCCACTTGTGAAGgttagt--tccagatcttttggcatgcctaaatgcttcatgcagtg---gctggattcataattctttttgcatgttttgcatgtttcctgaagaattataaaaa

upper sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S47_126V6.2 (Physcomitrella patens), 5'ss of exon 5
TTGTACCGCTGGTGGTGCTTATATTCCGGCAATGGCTGATGAGAGTGTAATAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttctctgcctgccattttgattattcattttatgttttgcatggtgagatcttgaga--actatccaatgttttcaaatc--gcctatgcaccaata---
 ||||||||||| ||||| ||| | || || ||||||||||| || || || || || |||||||| ||||| ||||| ||||||||||| || || ||||||| ||   | | |||    ||||   | |||||||   | || ||  ||  |    |   ||   ||| |    |   |  |||   | || ||     | |   
CTGTACCGCTGGGGGTGCGTATGTGCCAGCTATGGCTGATGAAAGCGTCATCGTCAAAGGAAATGGCACAATCTTTCTTGCTGGTCCACCCCTAGTCAAGgtgactgaaatat-cctaaagtttt--cttttcattt---gcttcgcg-ggcaattcttcaggatggctacctttcgggatttaatttggactctgggtagagatca

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|29640036|gb|CB645045.1|CB645045
EST:     TAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAG                         GCTGCTACAGGAGAAGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTG
genomic: TAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttc ... aattttgcagGCTGCTACAGGAGAAGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTG
EST: gi|29674091|gb|CB670366.1|CB670366
EST:     TAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAG                         GCTGCTACAGGAGAAGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTG
genomic: TAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttc ... aattttgcagGCTGCTACAGGAGAAGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTG
EST: gi|29640074|gb|CB645083.1|CB645083
EST:     TAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAG                         GCTGCTACAGGAGAAGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTG
genomic: TAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttc ... aattttgcagGCTGCTACAGGAGAAGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTG
EST: gi|29681516|gb|CB677791.1|CB677791
EST:     TAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAG                         GCTGCTACAGGAGAAGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTG
genomic: TAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttc ... aattttgcagGCTGCTACAGGAGAAGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTG