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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgactactggtcttagtttgaaatttaagtggtatatgtatttttgaaaggcagaatatgccataatatttggtattttgttgttacttctattctttttcgtaatgccatgatttattttattaactctgtgtaaaatgtatgctttcataagaggatgagattattctatgcttctttgtagGAGTGGGTACCTGTATCAACATTGGCTCGTCCTGATAAACTGGGATTGAGATGCCCAGAGCGACGCAGAGTTAGGCCACGCCCTCAACAAAATAGTTTGG

Basic information

species Oryza sativa
transcript LOC_Os07g41640.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g41640.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G037444_T02 (Zea mays), 3'ss of exon 4
gtatgactactggtcttagtttgaaatttaagtggtatatgtatttttgaaaggcagaatatgccataatatttggtattttgttgttacttctattctttttcgtaatgccatgatttattttattaactctgtgtaaaatgtatgctttcataagaggatgagattattctatgcttctttgtagGAGTGGGTACCTGTATCAACATTGGCTCGTCCTGATAAACTGGGATTGAGATGCCCAGAGCGACGCAGAGTTAGGCCACGCCCTCAACAAAATAGTTTGG
                                        ||||| |||| |    || |  |  || |   | | | |  | |     ||| ||| | |    | |||    |  | |  |||  |||    |  || | | | |  |    ||  |  | ||| |   | | ||| ||| ||||||||  ||||||||  ||  ||||||||| |||||||||||||||| |||||  || ||| || |  ||| | |||||||| |||||| |||||||||| |
----------------------------------------gtattattgatatcttgacttcgaaattaggctagat-tactatgtactcttttatgcctgcatgaaatatttttttattctttcctaaaaaggattatattatttcttggtgtatcaataggagtt---tttgtgcctctatgtagGAGATGGTACCTGCCTCTGCATTGGCTCTTCCTGATAAACTGGGACTGAGACACCAAGACCGGCTAAGAATCAGGCCACGTCCTCAAGAAAATAGTTTTG
















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|58654581|gb|CK043261.1|CK043261
EST:     AGGTTCAGTATGATGATCTCCAGAATGCTGATGATAGTGGGAGATTGGAG                         GAGTGGGTACCTGTATCAACATTGGCTCGTCCTGATAAACTGGGATTGAGA
genomic: AGGTTCAGTATGATGATCTCCAGAATGCTGATGATAGTGGGAGATTGGAGgtatgactac ... ttctttgtagGAGTGGGTACCTGTATCAACATTGGCTCGTCCTGATAAACTGGGATTGAGA
EST: gi|32948227|gb|BP184799.1|BP184799
EST:     AGGTTCAGTATGATGATCTCCAGAATGCTGATGATAGTGGGAGATTGGAG                         GAGTGGGTACCTGTATCAACATTGGCTCGTCCTGATAAACTGGGATTGAGA
genomic: AGGTTCAGTATGATGATCTCCAGAATGCTGATGATAGTGGGAGATTGGAGgtatgactac ... ttctttgtagGAGTGGGTACCTGTATCAACATTGGCTCGTCCTGATAAACTGGGATTGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgtaaaatgtatgctttcataagaggatgagattattctatgcttctttgtagGAGTGGGTACCTGTATCAACATTGGCTCGTCCTGATAAACTGGGATTGAGATGCCCAGAGCGACGCAGAGTTAGGCCACGCCCTCAACAAAATAGTTTGG
                                     ttctatgcttcttt  CT-rich tract
                                 attattctat  TA-rich tract