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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtttgattcctttcaagcatttgaggagatttgcgcattggcagataaaaataaggtttctatgagtgatatttctgtcgccgccacttgttttcaccagctctggcaagctcatttgttgtttaatatatgagattacaatattgcattgcagGTGGATTTTATACTTCTCGGTGGTGATCTATTCCATGAGAACAAGCCGTCACGCTCAACCCTGGTAAAAACGATTGAGATTCTACGGCGCTACTGCCTAA

Basic information

species Zea mays
transcript GRMZM2G106056_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g54340.1 (Oryza sativa), 3'ss of exon 3
gtaggtttgattcctttcaagcatttgaggagatttgcgcattggcagataaaaataaggtttctatgagtgatatttctgtcgccgccacttgttttcac-cagctctggcaagctcatttgttgtttaatatatga-gattacaatattgcattgcagGTGGATTTTATACTTCTCGGTGGTGATCTATTCCATGAGAACAAGCCGTCACGCTCAACCCTGGTAAAAACGATTGAGATTCTACGGCGCTACTGCCTAA
                       ||||  | ||  ||| ||||     ||     |  | ||    ||    || | |  | |  | |    ||||       | |  |       | | || |   |||  |||||| |   |  ||| || ||||||||| |||||| | || || |||||||| || |||||||||||||| || ||||| |||||| | || || || ||||||||||||||||| |||||| | |
----------------------gtttgtag-gagctgcacatttttccattcttttctgcttgtgttgcaaaatttattggcctgctcattctgttgggggataaccttctatttatgaattatgaattataatatgatggaaatcatactgaattgcagGTTGATTTTGTGCTACTTGGTGGTGACCTTTTCCATGAGAACAAACCTTCACGTTCAACCTTAGTTAAGACCATTGAGATTCTACGGCGTTACTGCTTGA
















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|91052429|gb|EB162847.1|EB162847
EST:     ACTTGTAGCAACCGACTGCCATCTAGGCTACATGGAGAAAGATGAGATAC                         GTGGATTTTATACTTCTCGGTGGTGATCTATTCCATGAGAACAAGCCGTCA
genomic: ACTTGTAGCAACCGACTGCCATCTAGGCTACATGGAGAAAGATGAGATACgtaggtttga ... tgcattgcagGTGGATTTTATACTTCTCGGTGGTGATCTATTCCATGAGAACAAGCCGTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctctggcaagctcatttgttgtttaatatatgagattacaatattgcattgcagGTGGATTTTATACTTCTCGGTGGTGATCTATTCCATGAGAACAAGCCGTCACGCTCAACCCTGGTAAAAACGATTGAGATTCTACGGCGCTACTGCCTAA
                     gtttaat  putative branch site (score: 4)
                   ttgtttaatatatgag  TA-rich tract