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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatcactttgcatgcataacgtttgcttgctcactaccgtagaagcactcaggcagtaattcttttttatggggaaaatgcattttcttacag

Basic information

species Zea mays
transcript GRMZM2G030280_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030280_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g17260.1 (Oryza sativa), 5'ss of exon 7
GGCATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatca---ctttgcatgcataacgtttgcttgctcactaccgtagaagcactcaggcagtaattcttttttatggggaaaatgcattttct-tacag----------------------------------------------
|||||||||||||| || ||||| || ||| | || |||||||||||||||||||   ||||   | ||  |||  |||  | |  |  |||  |   | || ||||        ||   || ||   |||||  | ||| |     |  | |                                               
GGCATTTTTATATCCAGCTCAGTGGACCAGACTCATTCCATGAGTGGAAATGgtatatatcaaatccttcaatgtttaatatataatcactcttttttgcagcagcaactgtttggttgatcattacaatgggatatatgaaagcaatacataaacattctgccttgttgacagagcaattatactgtattttcttgcag
















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|50331700|gb|CO526826.1|CO526826
EST:     CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATG                         GGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
genomic: CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatca ... tttcttacagGGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
EST: gi|89249315|gb|DY621101.1|DY621101
EST:     ATTTTTATATCCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATG                         GGGGCATTGGCCTTTGATATGGAGTATGCGAG
genomic: ATTTTTATATC-TAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatca ... tttcttacagGGG-CATTGGCCTTTGATATGGAGTATGCGAG
EST: gi|74232819|gb|DT640733.1|DT640733
EST:     CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATG                         GGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
genomic: CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatca ... tttcttacagGGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
EST: gi|91872807|gb|EB402764.1|EB402764
EST:     CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATG                         GGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
genomic: CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatca ... tttcttacagGGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
EST: gi|60396273|gb|DN229142.1|DN229142
EST:     CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATG                         GGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
genomic: CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatca ... tttcttacagGGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
EST: gi|94472378|gb|EB701336.1|EB701336
EST:     CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATG                         GGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
genomic: CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatca ... tttcttacagGGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
EST: gi|71426016|gb|DR807066.1|DR807066
EST:     CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATG                         GGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
genomic: CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatca ... tttcttacagGGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
EST: gi|76290001|gb|DV029569.1|DV029569
EST:     CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATG                         GGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
genomic: CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatca ... tttcttacagGGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
EST: gi|211365702|gb|FL031151.1|FL031151
EST:     TATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATG                         GGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
genomic: TATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatca ... tttcttacagGGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
EST: gi|101385511|gb|EB814802.1|EB814802
EST:     CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATG                         GGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC
genomic: CATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatca ... tttcttacagGGGCATTGGCCTTTGATATGGAGTATGCGAGGTGGTTGGAAGAGCACAATC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCATTTTTATATCTAGTTCAGTTGATCAGTCACACTCCATGAGTGGAAATGgtaatcatcactttgcatgcataacgtttgcttgctcactaccgtagaagcactcaggcagtaattcttttttatggggaaaatgcattttcttacag

- - - - - - - - - - - - - - - - - - - - - AGTGGA