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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttttaaatatctaacatttcatgcttactttttttcctaagcacactgctttaagatttatattcataactaaaggtttaactgtggcaagtaatttgcttttgcttattttctgggccagctgagcagATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGTAGTTAGGTCCAATTGCATTGATTGCCTGGACCGTACAAATGTGACACAG

Basic information

species Zea mays
transcript GRMZM2G047894_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G047894_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os03g18080.2 (Oryza sativa), 3'ss of exon 13
----------gtaatttttaaatatctaacatttcatgctta-ctttttttcctaagcacactgctttaagatttatattcataactaaaggtttaactgtggcaagtaatttgcttttgcttattttctgggccagctgagcagATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGTAGTTAGGTCCAATTGCATTGATTGCCTGGACCGTACAAATGTGACACAG
             |  |||||||| | ||||||| | ||||| || || ||||| |  | ||| ||||||||||||| |  |  ||| ||||||||||| |||||||||||||||| ||| ||| |||| ||||||||||||||||||||||||||| ||| | ||||||||||| || ||||||||||| ||  ||||||| ||||||||||| ||||| ||||||||||||||||| || |||
gtaatttttaaacacctttaaatagccaacattt-acgcttatctcttgttcctgatgagactactttaagatttatttcaactactgaaggtttaactatggcaagtaatttgctcttgattaatttcggggccagctgagcagATATTTTCTTATCAACTCCAAAGGAGAGATATTCCTGGAGCAAAGCGGCATAGTTAGATCCAATTGCATAGATTGTCTGGACCGTACAAATGTAACTCAG
















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|31348859|gb|CD433216.1|CD433216
EST:     AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGCTGAGCAG                  
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGC-A-----AG--Ggtaattttta ... agc
EST: gi|40335862|gb|CK369932.1|CK369932
EST:     AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGG                         C
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... agctgagcag-
EST: gi|40335862|gb|CK369932.1|CK369932
EST:     AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGG                         C
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... agctgagcag-
EST: gi|40335862|gb|CK369932.1|CK369932
EST:     AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGG                         C
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... agctgagcag-
EST: gi|40335862|gb|CK369932.1|CK369932
EST:     AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGG                         C
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... agctgagcag-
EST: gi|71311517|gb|DR792122.1|DR792122
EST:     AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGG                         ATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGT
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGgtaattttta ... agctgagcagATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGT
EST: gi|5296286|gb|AI783056.1|AI783056
EST:     AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGCTGAGCAG                  
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGC-A-----AG--Ggtaattttta ... agc
EST: gi|5846902|gb|AI999985.1|AI999985
EST:     AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGCTGAGCAG                  
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGC-A-----AG--Ggtaattttta ... agc
EST: gi|60343346|gb|DN210319.1|DN210319
EST:     AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGCAAGGCTGAGCAG                  
genomic: AATTTGCAAGCTCTCTACAATCAAATTGAGGAAGCTATTCATAAGC-A-----AG--Ggtaattttta ... agc


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtttaactgtggcaagtaatttgcttttgcttattttctgggccagctgagcagATATTTTCTTATGAACACTAAAGGAGAGATTTTGCTGGAGCAAAGTGGTGTAGTTAGGTCCAATTGCATTGATTGCCTGGACCGTACAAATGTGACACAG
 gtttaac  putative branch site (score: 3)
              aagtaattt  TA-rich tract