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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGGGTTGCGTATTACATTGCGCAGGCACTCGATCACTGCAATGCCGAGAACCGAAAAATCTATCATGACTTGAATGCTTATAGAGTACTTTTTGATGAGgtatgtttgttgctgctagtacattccactcaaaacaccttttgtttctgctgattttgcattgcttttcacttccttcctcctgtgaactcggatgctttctgatcaaaatttactactttctgaagctttgctgatgtctgtaactaccgagagaattctaactttggcatgatttattctatcag

Basic information

species Oryza sativa
transcript LOC_Os10g42110.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g42110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G169080_T01 (Zea mays), 5'ss of exon 4
AAGGGTTGCGTATTACATTGCGCAGGCACTCGATCACTGCAATGCCGAGAACCGAAAAATCTATCATGACTTGAATGCTTATAGAGTACTTTTTGATGAGgtatgtttgttgctgctagtacattccactcaaaacaccttttgtttctgctgattttgcat-tgcttttcacttccttcctcctgtgaactcggatgctttctgatcaaaatttactactttctgaagctttgctgatgtctgtaactaccgagagaattctaactttggcatgatttattctatcag
 |||||||| ||||  ||||| || || ||||| || ||||||   |||||| | |||||||||||||| |||||||||||||||||||||||||||||||||         |  | |||   ||        |   | | | |||| | |||    |  || |  |||| |      |    || | |       | | || |  |||    |                                                                           
GAGGGTTGCATATTTTATTGCACAAGCTCTCGACCATTGCAATTTGGAGAACAGGAAAATCTATCATGATTTGAATGCTTATAGAGTACTTTTTGATGAGgtaca-------caacaagtttgtt-------gacagcttctagtttttactgcacatatatatattttttaaaattctggctctttcattgtaactacattttcttcatctgt---------------------------------------------------------------------------

upper sequence: LOC_Os10g42110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G054634_T02 (Zea mays), 5'ss of exon 4
AAGGGTTGCGTATTACATTGCGCAGGCACTCGATCACTGCAATGCCGAGAACCGAAAAATCTATCATGACTTGAATGCTTATAGAGTACTTTTTGATGAGgtatgtttgttgct-gctagtacattccactcaaaac-accttttgtttctgctgattttgcattgcttttcacttccttcctcctgtgaactcggatgctttctgatcaaaatttactactttctgaagctttgctgatgtctgtaactaccgagagaattctaactttggcatgatttattctatcag
           ||| ||||||||| || ||||| || |||||||| |||||| | |||||||||||||| |||||||||||||| ||||||||||||||||||        | | |||   || | | | |    || || |||| |||||||||  ||| |  |  |    || |  || || |||||||      |  ||| |    ||                                                                               
-----------ATTTCATTGCGCAAGCTCTCGACCATTGCAATGCTGAGAACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGGTACACAACAGgtttgctgacacctcctagtttttactacattttttttctgctggcttttccattgtaactacat--tttcttctgtgaaaatattttttttatctgtaagg-----------------------------------------------------------------------------

upper sequence: LOC_Os10g42110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G054634_T01 (Zea mays), 5'ss of exon 4
AAGGGTTGCGTATTACATTGCGCAGGCACTCGATCACTGCAATGCCGAGAACCGAAAAATCTATCATGACTTGAATGCTTATAGAGTACTTTTTGATGAGgtatgtttgttgct-gctagtacattccactcaaaac-accttttgtttctgctgattttgcattgcttttcacttccttcctcctgtgaactcggatgctttctgatcaaaatttactactttctgaagctttgctgatgtctgtaactaccgagagaattctaactttggcatgatttattctatcag
 |||||||| |||| ||||||||| || ||||| || |||||||| |||||| | |||||||||||||| |||||||||||||| ||||||||||||||||||        | | |||   || | | | |    || || |||| |||||||||  ||| |  |  |    || |  || || |||||||     ||  ||| |                                                                                     
GAGGGTTGCATATTTCATTGCGCAAGCTCTCGACCATTGCAATGCTGAGAACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtacacaacaggtttgctgacacctcctagtttttactacattttttttctgctggcttttccattgtaactacat--tttcttctgtgaa----aatattttttt------------------------------------------------------------------------------------

upper sequence: LOC_Os10g42110.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv02s0012g01140.t01 (Vitis vinifera), 5'ss of exon 4
AAGGGTTGCGTATTACATTGCGCAGGCACTCGATCACTGCAATGCCGAGAACCGAAAAATCTATCATGACTTGAATGCTTATAGAGTACTTTTTGATGAGgtatgtttgttgctgctagtacattccactcaaaacaccttttgtt--tctgctgattttgcattgcttttcacttccttcctcctgtgaactcggatgctttctgatcaaaatttactactttctgaagctttgctgatgtctgtaactaccgagagaattctaactttggcatgatttattctatcag
 || ||||| ||||| ||||| |||||||| ||||| || ||| | || ||||| || ||||||||||| |||||||| |||||||| ||||||||||||||| ||           | |    ||   |||     | | |||||  | ||||   | |         | ||  | |    || | |  | | | || | ||  |||||                                                                                
GAGAGTTGCATATTATATTGCTCAGGCACTTGATCATTGTAATACAGAAAACCGGAAGATCTATCATGATTTGAATGCATATAGAGTTCTTTTTGATGAGgtaagtc-------atgaattatctctcttcatgtttcttattgttgatttgctatgtctaggggctgatacatcttcagattctttt--atttgaatacatta-gatca--------------------------------------------------------------------------------

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|58678612|gb|CK067299.1|CK067299
EST:     ACCGAAAAATCTATCATGACTTGAATGCTTATAGAGTACTTTTTGATGAG                         GAAGGTGATCCTCGGCTGTCAAGTTTTGGACTAATGAAGAACAGCCGCGAT
genomic: ACCGAAAAATCTATCATGACTTGAATGCTTATAGAGTACTTTTTGATGAGgtatgtttgt ... attctatcagGAAGGTGATCCTCGGCTGTCAAGTTTTGGACTAATGAAGAACAGCCGCGAT