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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattcagcgtttgagtttgtgttcattgcattgttagtcacaacatgcacctgcttttgtcattaattgagcctctgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGAAACCGAGGCTCACCCCTATGTTTCCTTCACAATAAATTTTATCTGAGCA

Basic information

species Oryza sativa
transcript LOC_Os05g51530.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g51530.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G128995_T01 (Zea mays), 3'ss of exon 10
gtaattcagcgtttgagtttgtg---ttcattgcattgttagtcacaacatgcacctgcttttgtc--attaattgagcctctgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGAAACCGAGGCTCACCCCTATGTTTCCTTCACAATAAATTTTATCTGAGCA
||||||||| ||||  |   |||   | ||||| | | | | || ||   ||    || |||   |  |   |   | | | |||| ||||||||||| |||||||| |||||||| || || || || ||||||||||||||||| ||||| ||||| || || |||||||| ||||||||| ||||||  
gtaattcagtgtttcggggggtgcggtccattggactttgaatcgcacgttggtgttgttttccactaacacacacaacatttgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGAAACAGAGGCGCACCCTTACGTCTCCTTCACCATAAATTTTGTCTGAGAC

upper sequence: LOC_Os05g51530.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G144372_T01 (Zea mays), 3'ss of exon 10
gtaattcagcgtttgagtttgtgttcattgcattg--ttagtcacaacatgcacctgct-tttgtcattaattgagcctctgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGAAACCGAGGCTCACCCCTATGTTTCCTTCACAATAAATTTTATCTGAGCA
||||||||| | ||   || | || |  | | |||  ||  |    |||||    || | ||  ||| |||   | | | || |  ||||  | || |||||||| ||||||||||| || || |||||||||||||| ||||||||||| ||||| || || |||||||| ||||||||| ||||||  
gtaattcagtggtttgattggggtgcgatccgttgggtttttattcacatgttggtgttgttcttcactaacgcaacatttggaacgcagCCTGTATTGGAAATCCGAAGACGATGTAGGCGTTGCTGGTCTGGGAGGCGAAACCGAGGCGCACCCTTACGTCTCCTTCACCATAAATTTTGTCTGAGAC
















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|86841855|gb|CI337494.1|CI337494
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|88833079|gb|CI369969.1|CI369969
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|29621004|gb|CB626015.1|CB626015
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|22304801|gb|BQ906023.1|BQ906023
EST:     AAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: -AAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|38476572|gb|CF960705.1|CF960705
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|44674895|gb|CR288329.1|CR288329
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|88832120|gb|CI014679.1|CI014679
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|88838776|gb|CI376314.1|CI376314
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|89169855|gb|CI110214.1|CI110214
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|86412678|gb|CI067083.1|CI067083
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|88993179|gb|CI108807.1|CI108807
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGACAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|88762888|gb|CI772444.1|CI772444
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|89167979|gb|CI109183.1|CI109183
EST:     AGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGCCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGTTCTGGGAGGTGA
genomic: AGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|89194148|gb|CI116585.1|CI116585
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|29674593|gb|CB670868.1|CB670868
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|66930240|gb|CX117088.1|CX117088
EST:     GGAGCAT-CTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|25802832|gb|CA758793.1|CA758793
EST:     GAANAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|29674594|gb|CB670869.1|CB670869
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|89184153|gb|CI046718.1|CI046718
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|86867024|gb|CI343848.1|CI343848
EST:     TAAGGACCATCCT-GAGGAACTCTGTGGCAATGTCCATAG                         TATTTAGTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: TAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|86602685|gb|CI357049.1|CI357049
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|86420087|gb|CI054888.1|CI054888
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|38565596|gb|CK085049.1|CK085049
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|86488603|gb|CI131236.1|CI131236
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAACGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|89169875|gb|CI110234.1|CI110234
EST:     AGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: AGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|29613963|gb|CB618976.1|CB618976
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|58654927|gb|CK043607.1|CK043607
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|58666296|gb|CK054982.1|CK054982
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|58590593|gb|CF988901.1|CF988901
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|86864092|gb|CI332974.1|CI332974
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|29612870|gb|CB617883.1|CB617883
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|88843269|gb|CI372169.1|CI372169
EST:     AAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAACCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: AAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|86822271|gb|CI357878.1|CI357878
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|86599127|gb|CI355744.1|CI355744
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
EST: gi|88270309|gb|CI385567.1|CI385567
EST:     GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAG                         TATTTACTGGTAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA
genomic: GAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagc ... tgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttagtcacaacatgcacctgcttttgtcattaattgagcctctgaattgcagTATTTACTGGAAATCTGAAGACGATGTTGGTGTAGCTGGTCTGGGAGGTGAAACCGAGGCTCACCCCTATGTTTCCTTCACAATAAATTTTATCTGAGCA
                              cattaat  putative branch site (score: 3)
                                         cctct  putative PPT
                        ttttgtcattaatt  TA-rich tract