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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cataaagtgtcagtgatgctttttggcctcttggtactggttgttcttcattgacaatttctttagctcaacgatttcaattgttggcttattgtaacagGAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACCAAGGTTTCTGACCGGGAAAGGATTGTGAAG

Basic information

species Zea mays
transcript GRMZM2G138125_T02
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G138125_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os04g59624.3 (Oryza sativa), 3'ss of exon 10
-cataaagtgtcagtgatgctttttggcctcttggtactggttgttcttcattgacaatttctttagctcaacgatttcaattgttggcttattgtaacagGAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACCAAGGTTTCTGACCGGGAAAGGATTGTGAAG
 |  ||| |     |  |      | |      |      | | | | |  | |   | | ||| | |  |     |    | | |   ||| || ||||||| |||||||||||||| ||||||  |||||||||||||||||| ||||||||| |||||||  |||||||||||||||||
ccccaaattcctgcttttaaaaagtagtaaggagtagtaagatatgcattctgggttactacttcaacctagtagctaatgtagctta-ttactgcaacagGAGGCTATAATATTAGAAGGCTATAAGTTTTTGCGCATTGATGGTACCACCAAGATTTCTGAGAGGGAAAGGATTGTGAAG
















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|28873896|gb|CB329825.1|CB329825
EST:     ATCATGTTTTAATATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAG                         GAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC
genomic: ATCATGTTTTAATATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAGgtacattgtt ... attgtaacagGAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC
EST: gi|67035224|gb|CO463757.1|CO463757
EST:     ATCATGTTTTAATATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAG                         GAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC
genomic: ATCATGTTTTAATATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAGgtacattgtt ... attgtaacagGAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC
EST: gi|28987103|gb|CB351465.1|CB351465
EST:     ATCATGTTTTAATATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAG                         GAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC
genomic: ATCATGTTTTAATATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAGgtacattgtt ... attgtaacagGAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC
EST: gi|94475969|gb|EB704927.1|EB704927
EST:     ATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAG                         GAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC
genomic: ATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAGgtacattgtt ... attgtaacagGAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC
EST: gi|31909131|gb|CD650765.1|CD650765
EST:     ATCATGTTTTAATATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAG                         GAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC
genomic: ATCATGTTTTAATATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAGgtacattgtt ... attgtaacagGAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC
EST: gi|28930971|gb|CB334332.1|CB334332
EST:     ATCATGTTTTAATATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAG                         GAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC
genomic: ATCATGTTTTAATATTTTCACAGACTCGTAAAATGCTAAACCTTATTCAGgtacattgtt ... attgtaacagGAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcattgacaatttctttagctcaacgatttcaattgttggcttattgtaacagGAAGCTATAATATTAGAGGGCTATGCGTTTTTGCGCATTGATGGCACCACCAAGGTTTCTGACCGGGAAAGGATTGTGAAG
   cattgac  putative branch site (score: 3)
          aatttcttta  TA-rich tract