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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag

Basic information

species Oryza sativa
transcript LOC_Os12g03470.5
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G006130_T01 (Zea mays), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag
||| || || |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||| || ||||||||||||||     || |  |||    ||| ||||  || ||  |||   |||||      ||  | | |  ||| ||    ||||    |||                    
GAGAGAGTCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttta-----cactgcttca---ctttatttatttttctttcct--atcatg----acccctaagtattatattgaaatctacgtcaaag-------------------

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag
||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||||| ||||| ||||| ||||| ||||||||      | |  ||| |  |    ||| |||      ||||  |  | |  |  |  |||   | |||               || | |||| ||||||||||||
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagttta-----tactgcttctgttcgagctttcctt------ccctgttggtgtcct--cactgacaacaatt---------------aactctgaaatctacatcaaag

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G393002_T01 (Zea mays), 5'ss of exon 17
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttc---cgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag
|||  |||| ||||||||||||||||||||||| |||||||| || |||  |||||| |||||||| || ||||| |||||||||||||| ||||| | ||||| || | | || ||| | ||||   | | ||   |||||| ||||   ||||||    |||  | |||||| || || |                                    
GAGACAATCCATTGGTCCATGGGAAGAGAGGCCAGGACACTTCGGAGATTGTTGGCAGTACTGGACCGACGATGGTCTTGGATATTATGAATTTCTTCTGgtacaagatcaatt-acactgtttcatactctctcttttttctcatcatcacctaat----tatcacatttgaaatccatgtaaaag-------------------------------

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G006130_T02 (Zea mays), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag
||| ||||| |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||| || ||||||||||||||     || |  ||   | ||| ||||  || ||  |||   |||||  |   |||  | ||| ||||    | |      ||                      
GAGAGAATCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagttta-----cactgctt---cactttatttatttttctttcct--atcatg-accccctaagtattatattgaaatctacgtcaaag---------------------

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G006130_T03 (Zea mays), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcat-tttcttatcactccctaatcatatattgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag
||| || || |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||| || ||||||||||||||     | | | ||      ||  | |||| |||||   ||     |  ||||   || ||| ||||  |       |   | |  |  ||               
GAGAGAGTCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagtttacactgcttcactttatttatttttctttcctatcatgaccc--ctaagtattatatt-gaaatctacgtcaaagcttg-cggaggacctgggt------------

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA03G27490.1 (Glycine max), 5'ss of exon 7
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag
||  ||   | |||| || ||||||||||| ||||| |||||||| |||||||||  ||| ||||| ||||| ||  |||| |||| ||||  ||| || |||  |||  | ||   || ||  |   |   |||||| || | | |      | | ||     | |   |  | ||||||| |     |                         
GAAAGATAGTGTTGGACCCTGGGAAGAGAGACCTGGTCACTTTGGTGATGTTTGGAGTTATTGGACAGATGAAGGATTTGGTTATTTTGAGGGTCTTCAAgta--agtccatttattatgataacaatca--cattttgttgttatt-----gtgaaattcaatcataataagccattttttgtgtgtgtag-----------------------

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA19G30450.1 (Glycine max), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttt-tctaatgaaaaatttgaactctacatcaaag---------
||    ||| ||||| |||||||| ||||| ||||| |||||||| |||||||||   ||||||||||||||||| ||||| ||||||||||||||||| |||   |  |  ||     ||||   ||     ||| |  | |   |  ||| ||  ||  | |  |  | || |  | |  |  |  ||||| | || | |    ||    ||           
GAAAACATCCATTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTGGATGTACTGGACTGATGATGGACTTGGTTATTATGAGTTTCTCCAAgtaagtgcctctttacatatattgtagcttaggattatgatgttcgtatctagtcgaat--tactct--agttgtgctatgctagtgaaatgatatatataattattattataatttttgagcag

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA03G00630.1 (Glycine max), 5'ss of exon 7
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag
||  ||  |  |||| |||||||||||||| || ||||||| ||| ||||| ||| |||| |||| |||||| ||  |||| |  | ||||   || || |||    ||   || | |  | |   ||   |     | ||     |  || ||   ||   |   | ||  ||||||| ||| || |                           
GAAAGACACAGTTGGACCATGGGAAGAGAGACCAGGACACTATGGAGATGTATGGAATTATTGGAGTGATGACGGATTTGGTTTCTTTGAGGGCCTTCAAgtagggtttccttttataa-actcatgcatatatggatatttaatttttcttattgaattgagaaatcga--tctatttgtttctcgagcag-----------------------

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA03G27460.3 (Glycine max), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttt-tctaatgaaaaatttgaactctac-atcaaag--------
||  | |||| |||| |||||||| ||||| ||||| |||||||| |||||||||   ||||||||||||||||| ||||| ||||||||||||||||| |||   |  |  ||     ||||   ||     | | |  | |   |  ||| |  |  ||| |  |||  || |  | |  |  |  ||||| | || | |    ||  || |           
GAAAGCATCTGTTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTGGATGTACTGGACTGATGATGGACTTGGCTATTATGAGTTTCTCCAAgtaagtgcctcttttcatatattgtagctgaggaatatgatgttcatatctagt--tgaattactcttgttttgtgctatgctagtgaaatgatatatattattattattattatttttgagcag

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: AT5G26120.1 (Arabidopsis thaliana), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag
||  ||| |  |  |  | ||||||||||| ||||| || | ||| ||||||||| | |||||||||||||||||||||||  | | ||| ||  | || |||   | ||  ||    |  |||| |  ||  ||    |||         ||| || || |    | |||  | | | ||| || ||                           
GAAAGAAACCGTGAGAGCTTGGGAAGAGAGACCTGGCCATTATGGTGATGTTTGGAAGTACTGGACTGATGATGGCCTTGGCCACTTTGAATTCTTTCAAgtaagggatttttt----tcttttcggttctatatccatttaaagtgtttcaataat-tactaagctcgaaa-caaatatttcttgtag--------------------------

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatat-attgcctttgaattctatttttttttctaatgaaaaatttgaactctacatcaaag
||  ||| |  | || || ||||||||||| || || || ||||| ||||||||| | || ||||| ||||||||||||||  | | ||||||  | || ||            ||| |  | |   |  || | |   | || |  ||| || |   | ||||  | | || |  |  || ||                                
GAAAGAAACCGTAGGACCTTGGGAAGAGAGACCGGGCCATTTTGGTGATGTTTGGAAGTATTGGACCGATGATGGCCTTGGCCACTTTGAGTTCTTTCAAgtga----------gacttcttcttttctattgagtacataatgatccccgaagctcgttattgaatattaaatgaacattcttgcag----------------------------

upper sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv08s0040g00320.t01 (Vitis vinifera), 5'ss of exon 9
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagtttagttgacattatttccgcccttcattttcttatcactccctaatcatatattgcctttga-attctatttttttttctaatgaaaaatttgaactctacatcaaag
||   |  | ||||| || ||||| ||||| |||||||||||||| ||||||||| | ||||||||||||||||| ||||| |||| |||||| || || |||    | |        | | ||  |       |||  ||||  ||   | ||  || | |  |  ||| || ||  ||   |   | |  ||   ||||   |||  |      
GAAACAGACAATTGGGCCCTGGGAGGAGAGACCTGGACACTTTGGTGATGTTTGGAAGTACTGGACTGATGATGGACTTGGTTATTTTGAGTTCCTTCAAgtatgtatcttccacctgtcaattgtgaaagat-tttatttatatcttagtgattgtacaatttccatgagatgctgcttaggtaatttacaaatgttttgt-ttctgtag-----

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|29667817|gb|CB664092.1|CB664092
EST:     TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAG                         CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagttt ... tacatcaaagCTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATG
EST: gi|55410431|gb|CV722807.1|CV722807
EST:     TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAG                         CTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagttt ... tacatcaaagCTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATG
EST: gi|29630007|gb|CB635016.1|CB635016
EST:     TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAG                         CTTTCTGAGGACCTGGGCGCTGCCCCAATTTGGGTGTTTAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagttt ... tacatcaaagCTTTCTGAGGACCTGGGCGCTGCCCCAATCTGGGTGTTTAACAATG
EST: gi|33675310|gb|CF303549.1|CF303549
EST:     TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAG                         CTTTCTGAGGACCT
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAGTTTCTCCAGgtaccagttt ... tacatcaaagCTTTCTGAGGACCT