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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTATGATGATGAGGTGGACTGTGATGAGGCTAATGATGATGAGCCTAATCCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattggatttcgtgataatattctcagggtttaatgctcaatatttttttgagttctataatgagttgttacaattgctcttcag

Basic information

species Oryza sativa
transcript LOC_Os01g67250.2
intron # 11
splice site 5'
intron type U2

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|88594398|gb|CI714356.1|CI714356
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88665659|gb|CI715815.1|CI715815
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAAC-TTCTTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88674982|gb|CI729095.1|CI729095
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-CTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88674069|gb|CI728182.1|CI728182
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|87027299|gb|CI269974.1|CI269974
EST:     CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
genomic: CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88954679|gb|CI720194.1|CI720194
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88673534|gb|CI727647.1|CI727647
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88670952|gb|CI725068.1|CI725068
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88905390|gb|CI712689.1|CI712689
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88667453|gb|CI722192.1|CI722192
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88674127|gb|CI728240.1|CI728240
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88905600|gb|CI712899.1|CI712899
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTNGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88594913|gb|CI715069.1|CI715069
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88905432|gb|CI712731.1|CI712731
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTG-CAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGG
EST: gi|88675277|gb|CI728496.1|CI728496
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|25798389|gb|CA754350.1|CA754350
EST:     CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
genomic: CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88672961|gb|CI727076.1|CI727076
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-CTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|87014053|gb|CI273243.1|CI273243
EST:     CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
genomic: CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|218494111|gb|FG958756.1|FG958756
EST:     CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
genomic: CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88665536|gb|CI715692.1|CI715692
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88676688|gb|CI730801.1|CI730801
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88676617|gb|CI730730.1|CI730730
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88905315|gb|CI712614.1|CI712614
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88668183|gb|CI722922.1|CI722922
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|29630218|gb|CB635227.1|CB635227
EST:     CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
genomic: CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88668205|gb|CI722944.1|CI722944
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|58694285|gb|CK082972.1|CK082972
EST:     TGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
genomic: TGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|86482466|gb|CI125099.1|CI125099
EST:     CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
genomic: CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88669499|gb|CI723417.1|CI723417
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88669998|gb|CI724114.1|CI724114
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|29629880|gb|CB634889.1|CB634889
EST:     CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
genomic: CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88675484|gb|CI729597.1|CI729597
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88675910|gb|CI730023.1|CI730023
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88670042|gb|CI724158.1|CI724158
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88674244|gb|CI728357.1|CI728357
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|86481978|gb|CI124611.1|CI124611
EST:     CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
genomic: CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|29625772|gb|CB630783.1|CB630783
EST:     CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
genomic: CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|29624492|gb|CB629503.1|CB629503
EST:     CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
genomic: CCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG
EST: gi|88594069|gb|CI713240.1|CI713240
EST:     GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAG                         GGGTGTTGCAAGATATCTCAAAACTTT-TTTGATGAGGAATCTGGTCTGGG
genomic: GTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattgg ... tgctcttcagGGGTGTTGCAAGATATCTCAAAACTTTATTTGATGAGGAATCTGGTCTGGG

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTATGATGATGAGGTGGACTGTGATGAGGCTAATGATGATGAGCCTAATCCTGAGGAATTCCAGTCTCTTGATAACAGTGGATGGTCTTCACGTACTAGgtacgattggatttcgtgataatattctcagggtttaatgctcaatatttttttgagttctataatgagttgttacaattgctcttcag

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