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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgcgtgtatgactgttgttacccagatatttttcagttatatagctttactggatatccttgatgggtcatgatttgataattttgtgacaattgcagATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGAATTGCTTGATCTGCTGACAAAACAGTCTTTAGCTGGGATTCCCTTGCTT

Basic information

species Zea mays
transcript GRMZM2G089454_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G089454_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g49980.2 (Oryza sativa), 3'ss of exon 4
-tgtgcgtgtatgactgttgttacccagatatttttcagttatatagctttactggata-tccttgatgggtcatgatttgataattttgtgacaattgcagATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGAATTGCTTGATCTGCTGACAAAACAGTCTTTAGCTGGGATTCCCTTGCTT
   |   || ||||   ||||| |     | | | |    |||  ||| | |||   || |  | ||   || | || |   ||| |      ||||||||||||||| ||||| ||||||||||| |||||||| || ||||| ||||||||||||| ||| |||||||||||||| ||||||||||||||||| || || 
tactagctgcatgatgcttgtttcttgcttctgtgtt--ctatccagcctaactacctaatggtggaattgttaagaataattaactgacattcaattgcagATATGTGGTGGATGCTGCTGACCGGGATAGCATTCCGATAGCTAAAAGTGAATTGCATGACCTGCTGACAAAACAATCTTTAGCTGGGATTCCTTTACTA
















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|5762129|gb|AI967177.1|AI967177
EST:     AGATTCCGCACTATGTGGGAGCGCTACTGCCGTGGAGTTTCTGCTATTCT                         ATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGA
genomic: AGATTCCGCACTATGTGGGAGCGCTACTGCCGTGGAGTTTCTGCTATTCTgtaattcctg ... acaattgcagATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGA
EST: gi|5846814|gb|AI999897.1|AI999897
EST:     AGATTCCGCACTATGTGGGAGCGCTACTGCCGTGGAGTTTCTGCTATTCT                         ATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGA
genomic: AGATTCCGCACTATGTGGGAGCGCTACTGCCGTGGAGTTTCTGCTATTCTgtaattcctg ... acaattgcagATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGA
EST: gi|5296277|gb|AI783047.1|AI783047
EST:     AGATTCCGCACTATGTGGGAGCGCTACTGCCGTGGAGTTTCTGCTATTCT                         ATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGA
genomic: AGATTCCGCACTATGTGGGAGCGCTACTGCCGTGGAGTTTCTGCTATTCTgtaattcctg ... acaattgcagATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGA
EST: gi|211128977|gb|FL358619.1|FL358619
EST:     AGATTCCGCACTATGTGGGAGCGCTACTGCCGTGGAGTTTCTGCTATTCC                         ATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGA
genomic: AGATTCCGCACTATGTGGGAGCGCTACTGCCGTGGAGTTTCTGCTATTCTgtaattcctg ... acaattgcagATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGA
EST: gi|78022702|gb|DV491089.1|DV491089
EST:     AGATTCCGCACTATGTGGGAGCGCTACTGCCGTGGAGTTTCTGCTATTCT                         ATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGA
genomic: AGATTCCGCACTATGTGGGAGCGCTACTGCCGTGGAGTTTCTGCTATTCTgtaattcctg ... acaattgcagATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctttactggatatccttgatgggtcatgatttgataattttgtgacaattgcagATATGTTGTGGACGCTGCTGACCGAGATAGCATCCCAATAGCGAAAAGTGAATTGCTTGATCTGCTGACAAAACAGTCTTTAGCTGGGATTCCCTTGCTT
                             atttgat  putative branch site (score: 5)
                          atgatttgataatttt  TA-rich tract