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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttctttcacagaacaagtccgaatatataactcgcgagatatcctggcaatgccaaatcttcgtttatttttctttcctcgtgcatttcactttttttttttttactttgattgttcacatttgtattcattttcggaactgtcagCATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTTCTATGCGAG

Basic information

species Zea mays
transcript GRMZM2G113640_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G113640_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os06g06730.1 (Oryza sativa), 3'ss of exon 7
gtaagttctttcacagaacaagtccgaatatataactcgcgagatatcctggcaatgccaaatcttcgtttatttttctttcctcgtgcatttcactttttttttttttactttgattgttcacatttgtattcattttcggaactgtcagCATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTTCTATGCGAG
                                                    |||     || | |  |||||   | || | || || | ||  | |     |||| |   |||||| ||        | ||   | || || || | |||| |||||||||| |||||||||   || ||||||||| ||||| ||||||||||| |||
-------------------------------------------------caacaagaagtaaccat-atttatcaatgttccatcttgtagttagcatggaagttttattaattgattttttgtccaccttttttgtgtctgatct-ttagCACATCAAGAAGGTAGCCTTGCGCAACTGCAATGCCATAAGTGCCGAGGTTCTATGTGAG
















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|211270654|gb|FL248444.1|FL248444
EST:     GTTGCTTCTCAAGCTGTCTATTCTCTACACAAGACTTCCACTAGAGAA                         CATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCA
genomic: GTTGCTTCTCAAGCTGTCTATTCTCTACACAAGACTTCCACTAGAGAAgtaagttctt ... gaactgtcagCATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCA
EST: gi|91874160|gb|EB404117.1|EB404117
EST:     CACAAGACTTCCACTAGAGAA                         CATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTT
genomic: CACAAGACTTCCACTAGAGAAgtaagttctt ... gaactgtcagCATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTT
EST: gi|32928356|gb|CF033168.1|CF033168
EST:     GTTGCTTCTCAAGCTGTCTATTCTCTACACAAGACTTCCACTAGAGAA                         CATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTT
genomic: GTTGCTTCTCAAGCTGTCTATTCTCTACACAAGACTTCCACTAGAGAAgtaagttctt ... gaactgtcagCATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTT
EST: gi|213171204|gb|FM188301.1|FM188301
EST:     GTTGCTTCTCAAGCTGTCTATTCTCTACACAAGACTTCCACTAGAGAA                         CATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTT
genomic: GTTGCTTCTCAAGCTGTCTATTCTCTACACAAGACTTCCACTAGAGAAgtaagttctt ... gaactgtcagCATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTT
EST: gi|211470300|gb|FL449608.1|FL449608
EST:     CTCTACACCAAG-CTTCCACTAGAGAA                         CATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTT
genomic: CTCTACA-CAAGACTTCCACTAGAGAAgtaagttctt ... gaactgtcagCATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTT
EST: gi|6227108|gb|AW155812.1|AW155812
EST:     GTTGCTTCTCAAGCTGTCTATTCTCTACACAAGACTTCCACTAGAGAA                         CATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTT
genomic: GTTGCTTCTCAAGCTGTCTATTCTCTACACAAGACTTCCACTAGAGAAgtaagttctt ... gaactgtcagCATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttttttactttgattgttcacatttgtattcattttcggaactgtcagCATATCAAGAAGGCAGCCTTGCGTGGCTTCAATGCCATCAGTGCGGAGGTTCTATGCGAG
              ctttgat  putative branch site (score: 5)
     ttttttttactttgat  TA-rich tract