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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctttgtttcagaaccttcactatggtcctcaacattttctacacctttatttagaacattaagttgcatgccttattaatatatcactactatttttaatcatttccttgccctcatgtttgcttgacatagcttaataaattatgtccttactgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAGGTTCAGTCTGAATGTGGGGTACATCTGTGTCAGTAGTCGCCGTTACAAG

Basic information

species Zea mays
transcript GRMZM2G134770_T04
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134770_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os08g41010.7 (Oryza sativa), 3'ss of exon 9
gtctttgtttcagaaccttcactatggtcctcaacattttctacacctttatttagaacat-------taagttgcatgccttattaatatatcactactatttttaatcatttccttgccctcatgtttgcttg-acatagcttaataaattatgtccttactgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAGGTTCAGTCTGAATGT--GGGGTACATCTGTGTCAGTAGTCGCCGTTACAAG
||   |  || ||||||| || |||| || |||  || | | |  ||||| |||||||||        ||| ||||||  |||||   | |   |  |  | |||   | |||| |||| | ||||  |  ||||  ||| |||| ||| || |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||  |||||  |||||||||||||||||| | |  |  
gtgcataatt-agaacctccagtatgatcatcattatatgccatgcctttctttagaacaattcaatataaattgcatatcttat--gttttctatcaacagtttcgtttatttgcttgtcttcatcatctcttgtgcatggcttgatatatcatgtccttactgttacagTGAGTCCTAGAACAGTTATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAGGTTCAGTCTGAATGTCTGGGGTCTATCTGTGTCAGTAGTCGCTGCTGTA--
















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|5005812|gb|AI711874.1|AI711874
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|71428348|gb|DR809398.1|DR809398
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|89248611|gb|DY620397.1|DY620397
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|6994049|gb|AW453263.1|AW453263
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|12970927|gb|BG267228.1|BG267228
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|32943442|gb|CF048261.1|CF048261
EST:     CATCACAGACGAACAATGCAAATGAATCNGAGGGAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|28910525|gb|CB331482.1|CB331482
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|94474683|gb|EB703641.1|EB703641
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|6952762|gb|AW424845.1|AW424845
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|78112738|gb|DV531132.1|DV531132
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|33097662|gb|CF057622.1|CF057622
EST:     GAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCGGCGTCGTCGTCAAG
genomic: GAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|76909152|gb|DV163248.1|DV163248
EST:     CTTCACAGGCGAACAATGCAAATGAATCAGCGGAAGATCGGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|211500849|gb|FL455460.1|FL455460
EST:     ATCACAGACGGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: ATCACAGAC-GAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|74243768|gb|DT651682.1|DT651682
EST:     CATCACAGCCGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|88752563|gb|DY536704.1|DY536704
EST:     CATCCCAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGGGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|211158909|gb|FK993540.1|FK993540
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCATCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|78026571|gb|DV494958.1|DV494958
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|31350190|gb|CD434547.1|CD434547
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCATCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|71762425|gb|DR960362.1|DR960362
EST:     TCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: TCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
EST: gi|89247194|gb|DY618980.1|DY618980
EST:     CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAG                         TGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG
genomic: CATCACAGACGAACAATGCAAATGAATCAGCGGAAGATCAGGACAATCAGgtctttgttt ... actgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgccctcatgtttgcttgacatagcttaataaattatgtccttactgttacagTGAGTCCTAGAACAGTAATGAGGGTCAAGAAGGTCCAGCGTCGTCGTCAAGGTTCAGTCTGAATGTGGGGTACATCTGTGTCAGTAGTCGCCGTTACAAG
                                        tccttac  putative branch site (score: 2)
                                        tccttact  CT-rich tract
                      atagcttaataaatta  TA-rich tract