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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaccagcggccaagcgctgccttcgctcaaaaaactaattccaaaagattcctcgatcgatctcggccggcggcggcggcggcggcgctgattctgtttttctttggtttctctgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTTCAACTGCCAGGGAGCCGGGTGGTGCCGCGTGACCAAGCGGACGCGCGTG

Basic information

species Zea mays
transcript GRMZM2G340656_T05
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G340656_T05 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g10840.1 (Oryza sativa), 3'ss of exon 7
gtgaccagcggccaagcgctgccttcgctcaaaaaactaattccaaaagattcctcgatcgatctcggccggcggcggcggcggcggcgctgattctgtttttctttggtttctctgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTTCAACTGCCAGGGAGCCGGGTGGTGCCGCGTGACCAAGCGGACGCGCGTG
                                     |||     ||||||| |   ||   | |         |    ||   ||    ||  |     |||  | |  || | ||      |||||||||||||| |||||||||||||| ||||| |||||||| || ||||||||||||||||| |||||||||||| | ||| |||||  ||||||||||
------------------------------------gtaacaaacaaagatttcgaaatttgtgt---------gaaatggtttcgaatttgggttaaaatttgatggaattttttgt-----agTTTGCTCAAGATATGGAACCTGAACAATTGCGGCGGCGTGGTCGGGGTGTTCAACTGCCAGGGCGCCGGGTGGTGCAGGGTGGCCAAGAAGACGCGCGTG
















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|154130378|gb|EC872174.2|EC872174
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|76012353|gb|DT939523.1|DT939523
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|148996151|gb|EE035420.2|EE035420
EST:     CGGCCCACACGGGATTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGGGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|149086838|gb|EE176387.2|EE176387
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|149084331|gb|EE173770.2|EE173770
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|211172040|gb|FL103285.1|FL103285
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAANCA-GTGCGGTGGCGTGGTGGGTGTGT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAA-CAAGTGCGGTGGCGTGGTGGGTGTGT
EST: gi|12047418|gb|BF729557.1|BF729557
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|78180926|gb|DV551299.1|DV551299
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|8930236|gb|BE225000.1|BE225000
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|149070806|gb|EE159216.2|EE159216
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|67015729|gb|CO444478.1|CO444478
EST:     CGGCCCACACGCGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATCTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|148941549|gb|EC886485.2|EC886485
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|149010052|gb|EE041855.2|EE041855
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|67020306|gb|CO449055.1|CO449055
EST:     CGGCCCACACGCGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATCTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|149087714|gb|EE177063.2|EE177063
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|78090795|gb|DV519169.1|DV519169
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|148932434|gb|EC876140.2|EC876140
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|148983163|gb|EE029102.2|EE029102
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAAC
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAAC
EST: gi|148939693|gb|EC884359.2|EC884359
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|149024936|gb|EE045966.2|EE045966
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|149111646|gb|EE190788.2|EE190788
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
EST: gi|148997335|gb|EE035830.2|EE035830
EST:     CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAG                         TTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT
genomic: CGGCCCACACGGGACTGCCTCTTCTCCGACCCGGCGCGCGACGGCGCGAGgtgaccagcg ... tgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcggcggcggcggcggcgctgattctgtttttctttggtttctctgctctgcagTTTGCTCAAGATTTGGAACCTGAACAAGTGCGGTGGCGTGGTGGGTGTGTTCAACTGCCAGGGAGCCGGGTGGTGCCGCGTGACCAAGCGGACGCGCGTG
                 cgctgat  putative branch site (score: 4)
                       ttctgtttttctttgg  CT-rich tract
                            tttttcttt  TA-rich tract