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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgatactagtagttcccttagtaaaaagtgaaagatctactcaagtacgtagtagagtaggaaaaaaaagaatcaattgaaacgaggagttccgttgcagCTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCTGGGGCCAGTCCGACGATCCCTGCGGAGAGTCGCCGTGGGAGGGCGTGAC

Basic information

species Zea mays
transcript GRMZM2G023715_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G023715_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g21230.1 (Oryza sativa), 3'ss of exon 1
tgatactagtagttcccttagtaaaaagtgaaa-gatctac-tcaagtacgtagtagagtaggaaaaaaaagaatcaattgaaacgaggagttccgttgcagCTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCTGGGGCCAGTCCGACGATCCCTGCGGAGAGTCGCCGTGGGAGGGCGTGAC
 ||      ||      ||  | ||    |    | |||   |  |  |  |  | | ||   |     |||||| || |||| || ||| ||  |||| ||| || || ||||| ||||||||||||||||||||||||||||||||  | ||||| ||||| ||||| || ||| | || ||||| ||||| || |||  
-gagtgggataaccttgtttatgaagctcgtgctgctctgtatttatgatcttattgtgtgatatcttgaagaatgaaatgaaccgtgga-tttggttgtagCATCTGTTCTCCGCGCGTTGATGGATCAGTGGCAGAACGCGCCGCCAACGTGGGGGCAGTCTGACGACCCATGCAGCGATTCGCCATGGGATGGAGTGGT
















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|148934000|gb|EC878001.2|EC878001
EST:     CTCTCCCGCGTGCGCGCAACAGTGCTCGGGCACGACAGACAGCCAGGACA                         CTTCCGTGCTCCCGGGCGTTGATGGAT
genomic: CTCTCC-GCGTGCGCGCAACAGTGCTCGGGCACGACAGACAGCCAGGACAgtgagtacca ... tccgttgcagCTTCCGTGCTCC-GGGCGTTGATGGAT
EST: gi|148981984|gb|EE028044.2|EE028044
EST:     GCTCTCCGCGTGCGCGCAACAGTGCTCGGGCACGACAGACAGCCAGGACA                         CTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCT
genomic: GCTCTCCGCGTGCGCGCAACAGTGCTCGGGCACGACAGACAGCCAGGACAgtgagtacca ... tccgttgcagCTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCT
EST: gi|148989786|gb|EE031799.2|EE031799
EST:     GCTCTCCGCGTGCGCGCAACAGTGCTCGGGCACGACAGACAGCCAGGACA                         CTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCT
genomic: GCTCTCCGCGTGCGCGCAACAGTGCTCGGGCACGACAGACAGCCAGGACAgtgagtacca ... tccgttgcagCTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCT
EST: gi|76291831|gb|DV031399.1|DV031399
EST:     GCTCTCCGCGTGCGCGCAACAGTGCTCGGGCACGACAGACAGCCAGGACA                         CTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCT
genomic: GCTCTCCGCGTGCGCGCAACAGTGCTCGGGCACGACAGACAGCCAGGACAgtgagtacca ... tccgttgcagCTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCT
EST: gi|71768121|gb|DR966058.1|DR966058
EST:     GCTCTCCGCGTGCGCGCAACAGTGCTCGGGCACGACAGACAGCCAGGACA                         CTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCT
genomic: GCTCTCCGCGTGCGCGCAACAGTGCTCGGGCACGACAGACAGCCAGGACAgtgagtacca ... tccgttgcagCTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCT
EST: gi|149076349|gb|EE164965.2|EE164965
EST:     GCTCTCCGCGTGCGCGCAGCAGTGCTCGGGCACGACAGACAGCCAGGACA                         CTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCT
genomic: GCTCTCCGCGTGCGCGCAACAGTGCTCGGGCACGACAGACAGCCAGGACAgtgagtacca ... tccgttgcagCTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacgtagtagagtaggaaaaaaaagaatcaattgaaacgaggagttccgttgcagCTTCCGTGCTCCGGGCGTTGATGGATCAGTGGCAGAACGCGCCGCCGTCCTGGGGCCAGTCCGACGATCCCTGCGGAGAGTCGCCGTGGGAGGGCGTGAC
                                            ttccgtt  CT-rich tract
                aaaaaaaagaatcaat  TA-rich tract