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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcatgtgtcattagagcacatcattgatcctcctagtatctgttctttgctaactacgcagtataaccttctcattctcatgtatttattatttgtcaccccttgtactgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCCAATGGTGAGGAAAAATTTATTACTTACGCCAAACCGAAGCGCCACGCA

Basic information

species Zea mays
transcript GRMZM2G073571_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073571_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os02g04020.1 (Oryza sativa), 3'ss of exon 9
gcatgtgtcattagagcacatcattgatcctcctagtatctgttc-tttgctaactacgcagtataaccttctcattctcatgtatttattatttgtcaccccttgtactgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCCAATGGTGAGGAAAAATTTATTACTTACGCCAAACCGAAGCGCCACGCA
             |  |   | |||  | | | || | | |||   ||   || |   ||| |     ||   |  |  |   ||| | ||| |  |      || |||||||||||||||||||  ||||| | || ||| |||||||| |||||||||||| |||||||||| ||||||||  | ||| |||| |||||  | |||| |||| ||
-------------gtacgtttgatttcttc-cttactgtttgtctattcattatcagtgcattgctttctatacccttcctcatatgttttaataatt-ttttttatactgataccagATAGTCCTTAGTGGCGAGGCTCAGTGTGCTCGACAAATTGTAACTGTTTCCAATGGAGAGGAAAAGATAATTTCTTATGCCAAGTCCAAGCACCACACA
















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|15177587|gb|BI398526.1|BI398526
EST:     GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAG                         ATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
genomic: GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAGgcatgtgtca ... ctgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
EST: gi|15323596|gb|BI478854.1|BI478854
EST:     GCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAG                         ATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
genomic: GCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAGgcatgtgtca ... ctgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
EST: gi|15188204|gb|BI417181.1|BI417181
EST:     TTAAGGCTGAAAAGGGACCGTGGAAGGACCCAGGCATACTTAAG                         ATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
genomic: TTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAGgcatgtgtca ... ctgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
EST: gi|16137338|gb|BI894203.1|BI894203
EST:     GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAG                         ATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTTA-TTC
genomic: GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAGgcatgtgtca ... ctgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAAC-TATTTC
EST: gi|16137339|gb|BI894204.1|BI894204
EST:     GGCTG-AAAGGGACCGTGG-AGGACCCAAACATACTTAATG                         ATAGTCC-AAGTGGTGGGGTTCATTGTGCTCGTCAAA-TGTAACTATTT-
genomic: GGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAA-Ggcatgtgtca ... ctgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTC
EST: gi|32832349|gb|CD972027.1|CD972027
EST:     GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAG                         ATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
genomic: GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAGgcatgtgtca ... ctgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
EST: gi|32847771|gb|CD987452.1|CD987452
EST:     GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAG                         ATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
genomic: GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAGgcatgtgtca ... ctgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
EST: gi|3172014|gb|AJ006545.1|AJ006545
EST:     GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAG                         ATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
genomic: GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAGgcatgtgtca ... ctgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
EST: gi|15177586|gb|BI398525.1|BI398525
EST:     GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAG                         ATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
genomic: GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAGgcatgtgtca ... ctgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
EST: gi|8383108|gb|BE055991.1|BE055991
EST:     GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAG                         ATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
genomic: GTTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAGgcatgtgtca ... ctgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC
EST: gi|15323597|gb|BI478855.1|BI478855
EST:     TTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAG                         ATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTAATTCC
genomic: TTGCCTTAAGGCTGAAAAGGGACCGTGGAAGGACCCAAACATACTTAAGgcatgtgtca ... ctgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaccttctcattctcatgtatttattatttgtcaccccttgtactgataccagATAGTCCAAAGTGGTGGGGTTCATTGTGCTCGTCAAATTGTAACTATTTCCAATGGTGAGGAAAAATTTATTACTTACGCCAAACCGAAGCGCCACGCA
                                           tactgat  putative branch site (score: 2)
           attctcatgtatttat  TA-rich tract