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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cccttttttttattatttaggcagcataatagctgatagctatatgccgacttttggtgtgtccaaaacatgttgattcttaaggttttgtgcttgtcagATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGATGAGTGGGACAAAGTTGCCGGAGTCAGACATCCTGATCTAATGTAATGTT

Basic information

species Zea mays
transcript GRMZM2G030072_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030072_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g22430.1 (Oryza sativa), 3'ss of exon 8
cccttttttttattatttaggcagcataatagctgatag---ctatatgcc-gacttttggtgtgtccaaaacatgttga-ttcttaaggttttgtgcttgtcagATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGATGAGTGGGACAAAGTTGCCGGAGTCAGACATCCTGATCTAATGTAATGTT
     | || || |     || ||| |  ||  |  ||    || | |    ||       |   ||   || ||||||| ||  | |  || ||||  |  |||||||||||||| ||||| |||||||||||||||||||||||||||||||| || |||||||||||||| ||||||||||  |||||| | |||| |||||
-----tgttgtactccaatggtagcttgctaaattgtattgcctgtgtatttgaacacatttcactctgcaagatgttgaatttgttaacttgtgtgagttacagATCCTTTGGCGTGGTCAAGAGAAGTACATGGCTGACATGCTCTCCCCAGAGGAATGGGACAAAGTTGCTGGAGTCAGACGCCCTGATATTATGTGATGTT
















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|32928536|gb|CF033348.1|CF033348
EST:     CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAG                         ATCCTTTGGCGCGGTCAGGAGAAGT
genomic: CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAGgtattattgt ... tgcttgtcagATCCTTTGGCGCGGTCAGGAGAAGT
EST: gi|8102628|gb|AW927429.1|AW927429
EST:     CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAG                         ATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGAT
genomic: CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAGgtattattgt ... tgcttgtcagATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGAT
EST: gi|33103277|gb|CF063237.1|CF063237
EST:     CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAG                         ATCCTTTGGCGCGGTCAGGAGAAGTAC
genomic: CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAGgtattattgt ... tgcttgtcagATCCTTTGGCGCGGTCAGGAGAAGTAC
EST: gi|9255042|gb|BE345510.1|BE345510
EST:     CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAG                         ATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGAT
genomic: CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAGgtattattgt ... tgcttgtcagATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGAT
EST: gi|16926968|gb|BM080036.1|BM080036
EST:     CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAG                         ATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAAAT
genomic: CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAGgtattattgt ... tgcttgtcagATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGAT
EST: gi|9255043|gb|BE345511.1|BE345511
EST:     CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAG                         ATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGAT
genomic: CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAGgtattattgt ... tgcttgtcagATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGAT
EST: gi|60355320|gb|DN222293.1|DN222293
EST:     ATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAG                         ATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGAT
genomic: ATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAGgtattattgt ... tgcttgtcagATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGAT
EST: gi|32929221|gb|CF034033.1|CF034033
EST:     CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAG                         ATCCTTTGGCGCGGTCAGGAGAAGT
genomic: CATTTTACATGGACTCCTTGAAGGCAAAGGAGTTTGGAGTCATTGACAAGgtattattgt ... tgcttgtcagATCCTTTGGCGCGGTCAGGAGAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccgacttttggtgtgtccaaaacatgttgattcttaaggttttgtgcttgtcagATCCTTTGGCGCGGTCAGGAGAAGTACATGGCTGACATGCTCTCCCCAGATGAGTGGGACAAAGTTGCCGGAGTCAGACATCCTGATCTAATGTAATGTT
                         tgttgat  putative branch site (score: 4)
                              attcttaa  TA-rich tract