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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actattattagaatggaattcaattctaatgatccaaacggggcagaaaggaaattgatccacattggatgattagcgtactgatacggtgtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTAACCAAATGGTTGGTCAGAAACTTTCAATTGTAACAGATAAACCGCAAAC

Basic information

species Zea mays
transcript GRMZM2G158024_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158024_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g49220.1 (Oryza sativa), 3'ss of exon 1
----------------------------------------actattattagaatggaattcaattctaatgat--ccaaacggggcagaaaggaaattgatccacattggatg--attagcgtactgatacg----gtgtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTAACCAAATGGTTGGTCAGAAACTTTCAATTGTAACAGATAAACCGCAAAC
                                          |  |   | ||  |  ||      | |||||  ||||| |   |      | |  |||      ||  |||   ||    || |||||      |||| | | ||||||||||||||||||| || |||||||||||||| |||||||| || ||||||||||| ||||||||||||||||||||||| ||||| |||||||||||
gtgaggcttctagcttctgtgaaattcacctcttcatttcgattctgaaataacagcctttttagtttatgatctccaaatgaaactattctgcagatgaatattttttcatgttgttgtaatattgatataccatgtgtttgcacagGTTATGTTGCTGTATTAGGAAAGCCAAATGTTGGAAAGAGCACCCTAATTAACCAAATTGTTGGTCAGAAACTTTCAATTGTGACAGACAAACCGCAAAC
















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|211496171|gb|FL037712.1|FL037712
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496169|gb|FL037710.1|FL037710
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496170|gb|FL037711.1|FL037711
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|149086134|gb|EE175674.2|EE175674
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|76287840|gb|DV027408.1|DV027408
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|74240633|gb|DT648547.1|DT648547
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496176|gb|FL037717.1|FL037717
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCAC
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCAC
EST: gi|211496166|gb|FL037707.1|FL037707
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496165|gb|FL037706.1|FL037706
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496172|gb|FL037713.1|FL037713
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTMTTGGGGAAGCCAAATGTYGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
EST: gi|211496174|gb|FL037715.1|FL037715
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATT
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATT
EST: gi|211054591|gb|FL410427.1|FL410427
EST:     GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCG                         GTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA
genomic: GTACGAGTCGGAGGAACTGGGCACCTCTCTTTGCGCCAATCATCGTAGCGgttaggctcc ... gtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaggaaattgatccacattggatgattagcgtactgatacggtgtctcctcagGTTATGTTGCTGTATTGGGGAAGCCAAATGTTGGCAAGAGCACACTTATTAACCAAATGGTTGGTCAGAAACTTTCAATTGTAACAGATAAACCGCAAAC
                                 tactgat  putative branch site (score: 2)
                                            tgtctcctc  putative PPT
      aaattgat  TA-rich tract