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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggaaatgtggaaaagtaatttaagataacccaagtcttgtattcatgtctgcatcagttccggggcttatatatatgcttacaatgtgtattctgagacagATGGATGTGAAATATCAGCATCCTAGCATACATCTCTACATGATGGACCTGAAGGCACCATTGATCCCTGAGGTTGAGGCTGCCGACAATGGGAACTACG

Basic information

species Zea mays
transcript GRMZM2G013981_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013981_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g57330.1 (Oryza sativa), 3'ss of exon 8
gtatggaaatgtggaaaagtaatttaagataac-------ccaagtcttgtattcatgtctgcatcagttccggggcttatatatatgcttacaatg----tgtattctgagacagATGGATGTGAAATATCAGCATCCTAGCATACATCTCTACATGATGGACCTGAAGGCACCATTGATCCCTGAGGTTGAGGCTGCCGACAATGGGAACTACG
|||   | |  |   |    |  |||  | |||       ||  ||| | |||   | ||||||||||| |    | |  | | ||   | ||  ||    || ||||| | |||||||||||||||||| || |||||||| || ||||| ||||| |||||||  || ||  ||||||||||||||||    | |  || |||     |  | |
gtacacacacttcagagttcatcttatcagaactcccttcccttgtcatttatctgtttctgcatcagtgcaaaaggtattctctaccatcacgctgttcttgaattctaacacagATGGATGTGAAATACCAACATCCTAGTATTCATCTTTACATAATGGACCCCAAAGCGACATTGATCCCTGAGGTCAGCGATAACGGCAACAACGAGGAGG
















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|78123962|gb|DV542346.1|DV542346
EST:     TGGAAATGTGGAAAAGCAATTTCATTGTGAAAACGGTCTCTAGATCGAAG                         ATGGATGTGAAATATCAGCATCCTAGCATACATCTCTACATGATGGACCTG
genomic: TGGAAATGTGGAAAAGCAATTTCATTGTGAAAACGGTCTCTAGATCGAAGgtatggaaat ... tctgagacagATGGATGTGAAATATCAGCATCCTAGCATACATCTCTACATGATGGACCTG
EST: gi|30087783|gb|CB885989.1|CB885989
EST:     TGGAAATGTGGAAAAGCAATTTCATTGTGAAAACGGTCTCTAGATCGAAG                         ATGGATGTGAAATATCAGCATCCTAGCATACATCTCTACATGATGGACCTG
genomic: TGGAAATGTGGAAAAGCAATTTCATTGTGAAAACGGTCTCTAGATCGAAGgtatggaaat ... tctgagacagATGGATGTGAAATATCAGCATCCTAGCATACATCTCTACATGATGGACCTG
EST: gi|30087782|gb|CB885988.1|CB885988
EST:     TGGAAATGTGGAAAAGCAATTTCATTGTGAAAACGGTCTCTAGATCGAAG                         ATGGATGTGAAATATCAGCATCCTAGCATACATCTCTACATGATGGACCTG
genomic: TGGAAATGTGGAAAAGCAATTTCATTGTGAAAACGGTCTCTAGATCGAAGgtatggaaat ... tctgagacagATGGATGTGAAATATCAGCATCCTAGCATACATCTCTACATGATGGACCTG
EST: gi|29945697|gb|CB815773.1|CB815773
EST:     TGGAAATGTGGAAAAGCAATTTCATTGTGAAAACGGTCTCTAGATCGAAG                         ATGGATGTGAAATATCAGCATCCTAGCATACATCTCTACATGATGGACCTG
genomic: TGGAAATGTGGAAAAGCAATTTCATTGTGAAAACGGTCTCTAGATCGAAGgtatggaaat ... tctgagacagATGGATGTGAAATATCAGCATCCTAGCATACATCTCTACATGATGGACCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctgcatcagttccggggcttatatatatgcttacaatgtgtattctgagacagATGGATGTGAAATATCAGCATCCTAGCATACATCTCTACATGATGGACCTGAAGGCACCATTGATCCCTGAGGTTGAGGCTGCCGACAATGGGAACTACG
                             tgcttac  putative branch site (score: 2)
                    ttatatatatgctta  TA-rich tract