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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttaatattgtgtatagctcctgaaatctgaaaactcttgacgtctgtaatcatgtgaaaaattcgtacagGTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTAAATAAGGCAATCTCTGAGTATGAAACTTCAAAAAACAATGACTCGGGAA

Basic information

species Zea mays
transcript GRMZM2G031107_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G031107_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g38840.1 (Oryza sativa), 3'ss of exon 4
gtaagtttttaatattgtgtatagctcctgaaatctgaaaactcttgacgtctgtaatcatgtgaaaaattcgtacagGTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTAAATAAGGCAATCTCTGAGTATGAAACTTCAAAAAACAATGACTCGGGAA
||||||   | ||||  || |||||| ||      | | |  || | ||   |         ||||   |   | ||| | |||||||||||||| |||||  |||| | |||||||||||  | ||||||||| || || || ||| |||||||||| || |||||  |  | ||||
gtaagtcactgatatcatgaatagcttctttgcatttagatttcgtaacacgt---------tgaattttctttgcagATTAAATATGTTAGTGGTTCCTACAATAGCGGGGAAGGATTTGCATCATTAAATAACGCCATTTCAGAGAATGAAACTTCGAAGAACAACAAACCAGGAA
















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|78077422|gb|DV505856.1|DV505856
EST:     ATACCTCAAGGGAGCTTCAGATGAACATCTTTCTCAGTTTTTGCAGTTA                         GTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTA
genomic: ATACCTCAAGGGAGCTTCAGATGAACATCTTTCTCAGTTTTTGCAGTTAgtaagttttt ... attcgtacagGTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTA
EST: gi|20301108|gb|BQ164051.1|BQ164051
EST:     ATACCTCAAGGGAGCTTCAGATGAACATCTTTCTCAGCTTTTGCAGCTA                         GTAAAATATGTTAGTGGCTCCTATGATAGGGGGGAAGGATTTGAGTTATTA
genomic: ATACCTCAAGGGAGCTTCAGATGAACATCTTTCTCAGTTTTTGCAGTTAgtaagttttt ... attcgtacagGTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTA
EST: gi|33100725|gb|CF060685.1|CF060685
EST:     ATACCTCAAGGGAGCTTCAGATGAACATCTTTCTCAGTTTTTGCAGTTA                         GTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTA
genomic: ATACCTCAAGGGAGCTTCAGATGAACATCTTTCTCAGTTTTTGCAGTTAgtaagttttt ... attcgtacagGTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTA
EST: gi|33103231|gb|CF063191.1|CF063191
EST:     ATACCTCAAGGGAGCTTCAGATGAACATCTTTCTCAGTTTTTGCAGTTA                         GTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTA
genomic: ATACCTCAAGGGAGCTTCAGATGAACATCTTTCTCAGTTTTTGCAGTTAgtaagttttt ... attcgtacagGTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTA
EST: gi|78119964|gb|DV538348.1|DV538348
EST:     ATACCTCAAGGGAGCTTCAGATGAACATCTTTCTCAGTTTTTGCAGTTA                         GTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTA
genomic: ATACCTCAAGGGAGCTTCAGATGAACATCTTTCTCAGTTTTTGCAGTTAgtaagttttt ... attcgtacagGTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctcctgaaatctgaaaactcttgacgtctgtaatcatgtgaaaaattcgtacagGTAAAATATGTTAGTGGCTCCTATGATAGGGTGGAAGGATTTGAGTTATTAAATAAGGCAATCTCTGAGTATGAAACTTCAAAAAACAATGACTCGGGAA
                   tcttgac  putative branch site (score: 3)
                                       tgaaaaatt  TA-rich tract