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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcctgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag

Basic information

species Oryza sativa
transcript LOC_Os11g03730.3
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G006130_T01 (Zea mays), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcc-tgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag
||| || || |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||| |||||||||||||| || || ||||||| |||||||    | | | |   |   |||   |||| ||||| | ||     |  ||||   || ||  ||||  |                                  
GAGAGAGTCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagtttacactgcttcactttatttatttttctttcctatcatgaccc--ctaagtattatatt-gaaatctacgtcaaag-----------------------------

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G077299_T01 (Zea mays), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcctgcctttcattttcttatcacgtcctaat---catatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag
||| |||||||||||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||||| ||||||||||| ||||| | ||||||     | |   | |   ||||| ||  ||  |   ||||| |    ||   |||  || |||  |||| ||                                  
GAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATACTATGAATTTCTTCAGgtgccagtttatactgcttctgttcgagctttccttccctgttggtgtcctcactgacaacaattaactctgaaatctacatcaaag-----------------------------

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G393002_T01 (Zea mays), 5'ss of exon 17
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcctgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag
|||  |||| ||||||||||||||||||||||| |||||||| || |||  |||||| |||||||| || ||||| |||||||||||||||||||| | ||||| || | | || ||| | || |   || ||  ||| || |||      |   |  |||  | |||||  || || |                                  
GAGACAATCCATTGGTCCATGGGAAGAGAGGCCAGGACACTTCGGAGATTGTTGGCAGTACTGGACCGACGATGGTCTTGGATATTATGAATTTCTTCTGgtacaagatcaatt-acactgtttcatactctctcttttttctcat-catcacctaattatcacatttgaaatccatgtaaaag-----------------------------

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G006130_T02 (Zea mays), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcc-tgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag
||| ||||| |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||| |||||||||||||| || || ||||||| |||||||    | | | |   |   |||   |||| ||||| | ||     |  ||||   || ||  ||||  |                                  
GAGAGAATCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagtttacactgcttcactttatttatttttctttcctatcatgacccc-ctaagtattatatt-gaaatctacgtcaaag-----------------------------

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G006130_T03 (Zea mays), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcc-tgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatattttt-ctaatgaaaactttgaactccacatcaaag
||| || || |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||| |||||||||||||| || || ||||||| |||||||    | | | |   |   |||   |||| ||||| | ||     |  ||||   || ||  ||||  |     ||   | |     ||               
GAGAGAGTCAATTGGTCCATGGGAAGAGAGGCCTGGACACTTCGGGGATGTTTGGCATTACTGGACTGATGATGGGCTTGGATATTATGAGTTCCTTCAGgtaccagtttacactgcttcactttatttatttttctttcctatcatgaccc--ctaagtattatatt-gaaatctacgtcaaagcttgcggaggacctgggt------------

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA03G27490.1 (Glycine max), 5'ss of exon 7
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcctgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag
||  ||   | |||| || ||||||||||| ||||| |||||||| |||||||||  ||| ||||| ||||| ||  |||| |||| |||   ||| || |||  |||  | ||   || ||  |   |   |||||| || | |      |||   ||  |         || | | | | | ||                           
GAAAGATAGTGTTGGACCCTGGGAAGAGAGACCTGGTCACTTTGGTGATGTTTGGAGTTATTGGACAGATGAAGGATTTGGTTATTTTGAGGGTCTTCAAgta--agtccatttattatgataacaatca--cattttgttgttattgtgaaattcaatcataataagccattttttgtgtgtgtag--------------------------

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA19G30450.1 (Glycine max), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacat-tattcctgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag---------
||    ||| ||||| |||||||| ||||| ||||| |||||||| |||||||||   ||||||||||||||||| ||||| |||||||| |||||||| |||   |  | ||| |||| ||||   || |   ||| |  | |      ||| ||  || |   ||    || ||||  |  |  ||||| |  | | |     |    ||           
GAAAACATCCATTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTGGATGTACTGGACTGATGATGGACTTGGTTATTATGAGTTTCTCCAAgtaagtgcct-ctttacatatattgtagcttaggattatgatgttcgtatctagtcgaat-tactctagttgtgctatgctagtgaaatgatatatataattattattataatttttgagcag

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA03G00630.1 (Glycine max), 5'ss of exon 7
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcctgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag
||  ||  |  |||| |||||||||||||| || ||||||| ||| ||||| ||| |||| |||| |||||| ||  |||| |  | |||    || || |||    ||   || | |  | || ||| | |     | ||      | || ||   ||   |   | ||  | | | ||| || |                           
GAAAGACACAGTTGGACCATGGGAAGAGAGACCAGGACACTATGGAGATGTATGGAATTATTGGAGTGATGACGGATTTGGTTTCTTTGAGGGCCTTCAAgtagggtttccttttataa-actcatgcatatatggatatttaatttttcttattgaattgagaaatcgatctatttgtttctcgagcag-----------------------

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA03G27460.3 (Glycine max), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcctgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag--------------
||  | |||| |||| |||||||| ||||| ||||| |||||||| |||||||||   ||||||||||||||||| ||||| |||||||| |||||||| |||   |  |  ||     ||||   ||     | | |  | |      ||| |  |  ||| |  ||  ||| | |  | | ||| |||||   |  |  |    || |                 
GAAAGCATCTGTTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTGGATGTACTGGACTGATGATGGACTTGGCTATTATGAGTTTCTCCAAgtaagtgcctcttttcatatattgtagctgaggaatatgatgttcatatctagt--tgaattactctt--gttttgtgctatgctagtgaaatgatatatattattattattattatttttgagcag

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT5G26120.1 (Arabidopsis thaliana), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcctgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag
||  ||| |  |  |  | ||||||||||| ||||| || | ||| ||||||||| | |||||||||||||||||||||||  | | ||||||  | || |||   | ||  ||    |  || | |   |  ||    |||    ||   ||| || || |    | ||     |||||| |   |                          
GAAAGAAACCGTGAGAGCTTGGGAAGAGAGACCTGGCCATTATGGTGATGTTTGGAAGTACTGGACTGATGATGGCCTTGGCCACTTTGAATTCTTTCAAgtaagggatttttt----tcttttcggttctatatccatttaaagtgtttcaataat-tactaagctcgaaacaaatatttcttgtag-------------------------

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 8
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcctgcctttcattttcttatcacgtcctaatcatat-attgcctttgagttctatatttttctaatgaaaactttgaactccacatcaaag
||  ||| |  | || || ||||||||||| || || || ||||| ||||||||| | || ||||| ||||||||||||||  | | ||| ||  | || ||            ||| |  |   | |  || | |   | || |   || || |   | ||||  | | |  |  | ||| ||  |                           
GAAAGAAACCGTAGGACCTTGGGAAGAGAGACCGGGCCATTTTGGTGATGTTTGGAAGTATTGGACCGATGATGGCCTTGGCCACTTTGAGTTCTTTCAAgtga----------gacttcttcttttctattgagtacataatgatccccgaagctcgttattgaatattaaatgaacattcttgcag--------------------------

upper sequence: LOC_Os11g03730.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv08s0040g00320.t01 (Vitis vinifera), 5'ss of exon 9
GAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagtttacttgacattattcctgcctttcattttcttatcacgtcctaatcatatattgcctttgagttctatatttttctaatg---aaaactttgaactccacatcaaag
||   |  | ||||| || ||||| ||||| |||||||||||||| ||||||||| | ||||||||||||||||| ||||| |||| ||| || || || |||    | | |      | | |  ||       |||  ||||  | |  | ||  || | |  |  |||| |   |  ||   ||||    |||  |||    ||   |      
GAAACAGACAATTGGGCCCTGGGAGGAGAGACCTGGACACTTTGGTGATGTTTGGAAGTACTGGACTGATGATGGACTTGGTTATTTTGAGTTCCTTCAAgtatgtatcttccacctgtcaattgtgaaagat-tttatttatatcttagtgattgtacaatttccatgagatgc-tgcttaggtaatttacaaatgttttgtttctgtag-----

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|29672785|gb|CB669060.1|CB669060
EST:     TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAG                         CTTTCTGAGGATCTGGGTGCTGCCCCAATCTGGGTGTTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagttt ... cacatcaaagCTTTCTGAGGATCTGGGTGCTGCCCCAATCTGGGTGTTCAACAATG
EST: gi|29644765|gb|CB649772.1|CB649772
EST:     TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAG                         CTTTCTGAGGATCTGGGTGCTGCCCCAATCTGGGTGTTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagttt ... cacatcaaagCTTTCTGAGGATCTGGGTGCTGCCCCAATCTGGGTGTTCAACAATG
EST: gi|29646541|gb|CB651548.1|CB651548
EST:     TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAG                         CTTTCTGAGGATCTGGGTGCTGCCCCAATCTGGGTGTTNCA-CAATG
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagttt ... cacatcaaagCTTTCTGAGGATCTGGGTGCTGCCCCAATCTGGGTGTT-CAACAATG
EST: gi|29636288|gb|CB641297.1|CB641297
EST:     TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATTAATTTTTCCAG                         CTTTCTGAGGATCTGGGTGCTGCCCCAATCTGGGTGTTCAACAATG
genomic: TTTGGCATTACTGGACTGATGATGGCCTTGGATATTATGAATTTCTCCAGgtactagttt ... cacatcaaagCTTTCTGAGGATCTGGGTGCTGCCCCAATCTGGGTGTTCAACAATG