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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagttgacgctgacttgttagtttttgttgtttgttttgctcccagggtattgaaatatatgtttcactcctttattcttgcccacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCTTTTGATGTTGATGTTTTTGACTCTACTATAGATTACATAAAGTTAATGA

Basic information

species Oryza sativa
transcript LOC_Os03g50480.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g50480.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G109383_T01 (Zea mays), 3'ss of exon 6
gtaagagttgacgctgacttgttagtt-tttgttgtttgttt-tgctcccagggtattgaaatatatgtttcactcctttattcttgcccacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCTTTTGATGTTGATGTTTTTGACTCTACTATAGATTACATAAAGTTAATGA
||| || |  | |   || || ||  | |||  |    |||| |  |  |||| || || | ||| | |||  |||||   ||  |||       |||||| |||||||||||||| |||||||| | |||||||||||| |||||||| |||||||| |||||||||||||||| | |||||||||||||||||||||
gtatgattcaatgtcaacctgctaactatttactcaccgtttattttaacaggttagtggattatttatttt-ctcctactttactgct------gcagGTTGATATTTCTGTTGTCGGTGTCACCAGCTTCAGTGGACCCGAAGGCCCCTTTGATGTGGATGTTTTTGACTCTAGTGTAGATTACATAAAGTTAATGA

upper sequence: LOC_Os03g50480.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G023289_T03 (Zea mays), 3'ss of exon 6
gtaagagttgacgctgacttgttagtttttgttgtttgttttgctcccagggtattgaaatatatgtttcactcctttattcttgcccacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCTTTTGATGTTGATGTTTTTGACTCTACTATAGATTACATAAAGTTAATGA
||| || |    ||  || ||  |  | || || | |||||   |  |||| || || |||||   |||   ||  | | | || |    |  |||||| |||||||||||||| |||||||| | |||||||||||| |||||||| |||||||| ||||| |||||||||| | || ||||||||||||||||||
gtatgattcagtgccaacctgccaagtatt-ttctctgtttctttgacaggttagtggaatattcattt---tctctcact-ttact---actgcagGTTGATATTTCTGTTGTCGGTGTCACCAGCTTCAGTGGACCCGAAGGCCCCTTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGA
















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|58695799|gb|CK084486.1|CK084486
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|58693865|gb|CK082552.1|CK082552
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|58675297|gb|CK063984.1|CK063984
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|29612833|gb|CB617846.1|CB617846
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|29689598|gb|CB685873.1|CB685873
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|29671540|gb|CB667815.1|CB667815
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|29664693|gb|CB660968.1|CB660968
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|58654844|gb|CK043524.1|CK043524
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|58682481|gb|CK071168.1|CK071168
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|58670502|gb|CK059188.1|CK059188
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTT
EST: gi|15008682|gb|AU223070.1|AU223070
EST:     TCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: TCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|58666397|gb|CK055083.1|CK055083
EST:     TAATACAACGACAATTACTGAATATCTCATCGGCGGAAGACCTTCCAGAT                         GTCGATATTTC
genomic: TAATACAACGACAATTACTGAATATCTCATCG-CGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTC
EST: gi|29682384|gb|CB678659.1|CB678659
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|58602722|gb|CK013250.1|CK013250
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|58667790|gb|CK056476.1|CK056476
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|29614791|gb|CB619804.1|CB619804
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|29671584|gb|CB667859.1|CB667859
EST:     CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCT
EST: gi|33675599|gb|CF303838.1|CF303838
EST:     CTA-TACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGAT                         GTCGATATTTCT
genomic: CTAATACAACGACAATTACTGAATATCTCATCGCGGAAGACCTTCCAGATgtaagagttg ... cacatcgcagGTCGATATTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctcccagggtattgaaatatatgtttcactcctttattcttgcccacatcgcagGTCGATATTTCTGTTGTAGGTGTCACTACCTTCAGTGGACCTGAAGGCCCTTTTGATGTTGATGTTTTTGACTCTACTATAGATTACATAAAGTTAATGA
                        tttcactcctttattc  CT-rich tract
          tattgaaatatatgtt  TA-rich tract