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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtgcttcattgccattgtcttaacccgacggagcaatatgatatccctgaactgactgttttatgtgtcataatgaaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCTGGAATCAACCATCCAAATCAATATTTCAGTGAAAGCCAGAAAGTTCTGC

Basic information

species Zea mays
transcript GRMZM2G044317_T06
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044317_T06 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g22400.2 (Oryza sativa), 3'ss of exon 17
gtactgtgcttcattgccattgtcttaacccgacggagcaatatgatatccctgaactgactgttttatgtgtcataatgaaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCTGGAATCAACCATCCAAATCAATATTTCAGTGAAAGCCAGAAAGTTCTGC
||||||  | |||  |   |    ||||        |||||| |  ||  | |   |||  ||    || ||   | |||||||| |||| ||||||||||  | || ||||||||   ||| |||||||| |||||| |||||||||| ||||| ||||| |||||||||||||||||||||||  || 
gtactgcacctcacagttctacctttaat------aagcaatcttctaaacttcgtctgcttgaaccatctga-gttatgaaatacacagCTAGCTTGCACGATGACTTTTGAGGCAGAACATGGTGTCTCATGTGATACTGGAATCAATCATCCTAATCAGTATTTCAGTGAAAGCCAGAAAGTCTTGA
















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|211298656|gb|FL153827.1|FL153827
EST:     GGCATGCATTGGAAGAGGTAATGGATAAAGTGAARAACAGGCATTACCAG                         GTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
genomic: GGCATGCATTGGAAGAGGTAATGGATAAAGTGAAGAACAGGCATTACCAGgtactgtgct ... aaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
EST: gi|60351451|gb|DN218424.1|DN218424
EST:     AGAGGTAATGGATAAAGTGAAGAACAGGCATTACCAG                         GTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
genomic: AGAGGTAATGGATAAAGTGAAGAACAGGCATTACCAGgtactgtgct ... aaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
EST: gi|78021198|gb|DV489585.1|DV489585
EST:     ACAGGCATTACCAG                         GTAGCTTGCACATTAACCTTGGAGGCCACACACGGTGTCTCCTGTGATTCT
genomic: ACAGGCATTACCAGgtactgtgct ... aaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
EST: gi|32832353|gb|CD972031.1|CD972031
EST:     GGCATGCATTGGAAGAGGTAATGGATAAAGTGAAGAACAGGCATTACCAG                         GTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
genomic: GGCATGCATTGGAAGAGGTAATGGATAAAGTGAAGAACAGGCATTACCAGgtactgtgct ... aaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
EST: gi|32833600|gb|CD973278.1|CD973278
EST:     GGCATGCATTGGAAGAGGTAATGGATAAAGTGAAGAACAGGCATTACCAG                         GTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
genomic: GGCATGCATTGGAAGAGGTAATGGATAAAGTGAAGAACAGGCATTACCAGgtactgtgct ... aaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
EST: gi|32834800|gb|CD974478.1|CD974478
EST:     GGCATGCATTGGAAGAGGTAATGGATAAAGTGAAGAACAGGCATTACCAG                         GTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
genomic: GGCATGCATTGGAAGAGGTAATGGATAAAGTGAAGAACAGGCATTACCAGgtactgtgct ... aaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
EST: gi|78088857|gb|DV517250.1|DV517250
EST:     GGCATGCATTGGAAGAGGTAATGGATAAAGTGAAGAACAGGCATTACCAG                         GTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
genomic: GGCATGCATTGGAAGAGGTAATGGATAAAGTGAAGAACAGGCATTACCAGgtactgtgct ... aaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT
EST: gi|211096944|gb|FL476439.1|FL476439
EST:     GAAGAACAGGCATTTCCGG                         GTAGCTGGCACATTAACCCTTGAGGCCACACACGGTGTCTCCTGAGATTCT
genomic: GAAGAACAGGCATTACCAGgtactgtgct ... aaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagcaatatgatatccctgaactgactgttttatgtgtcataatgaaatatacagGTAGCTTGCACATTAACCTTTGAGGCCACACACGGTGTCTCCTGTGATTCTGGAATCAACCATCCAAATCAATATTTCAGTGAAAGCCAGAAAGTTCTGC
                   aactgac  putative branch site (score: 2)
                                     tcataatgaaatata  TA-rich tract