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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttacattaaatctagatttgtttctttctgccatagcttaataaatttatcccatctggtaatgttttgaattataatcatgttggtatgtctttgcagGTATATCTCATATCTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGTCTCAGTGGTTCACTATGGTGTTGCCATTGGTTTCTACCAAGGG

Basic information

species Oryza sativa
transcript LOC_Os12g04990.3
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g04990.3 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G176546_T01 (Zea mays), 3'ss of exon 2
---------gtgagtttacattaaatctagatttgtttctttctgccatagcttaataaatttatcccatctggtaatgttttgaattataatcatgttggtatgtctttgcagGTATATCTCATATCTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGTCTCAGTGGTTCACTATGGTGTTGCCATTGGTTTCTACCAAGGG
          ||  | |||| | ||  || | |||||| |   ||    ||||||   |||| |   |  |   |||  |||   |  ||||   ||| | |   |||   |||||||||||||||||| ||||| |||||||| || ||||| ||||||||| |  |||   | |||| ||||||||||||||| ||||||||||||
gttagtattttgcatatacactcaaa-taaaattgtttgtgcttgat-cagcttatccaattcacatctgcacttaacatttgtgaaaataactctgtggatcactctcctcagGTATATCTCATATCTGCCTTTGGCTCACATTTACGAGAGGGTTAACCAGATTGCAGCACTGCACTGTGGTGTTGCCATTGGATTCTACCAAGGG
















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|58655107|gb|CK043787.1|CK043787
EST:     GCAAATGTAGCAGGATCAAGCCTAGTCATTAAGTTTTACCCATCTGATGT                         GTATATCTCATATTTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGT
genomic: GCAAATGTAGCAGGATCAAGCCTAGTCATTAAGTTTTACCCATCTGATGTgtgagtttac ... gtctttgcagGTATATCTCATATCTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGT
EST: gi|58694148|gb|CK082835.1|CK082835
EST:     GCAAATGTAGCAGGATCAAGCCTAGTCATTAAGTTTTACCCATCTGATGT                         GTATATCTCATATTTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGT
genomic: GCAAATGTAGCAGGATCAAGCCTAGTCATTAAGTTTTACCCATCTGATGTgtgagtttac ... gtctttgcagGTATATCTCATATCTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGT
EST: gi|33797098|gb|CF324415.1|CF324415
EST:     GCAAATGTAGCAGGATCAAGCCTAGTCATTAAGTTTTACCCATCTGATGT                         GTATATCTCATATCTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGT
genomic: GCAAATGTAGCAGGATCAAGCCTAGTCATTAAGTTTTACCCATCTGATGTgtgagtttac ... gtctttgcagGTATATCTCATATCTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGT
EST: gi|58689916|gb|CK078603.1|CK078603
EST:     GCAAATGTAGCAGGATCAAGCCTAGTCATTAAGTTTTACCCATCTGATGT                         GTATATCTCATATTTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGT
genomic: GCAAATGTAGCAGGATCAAGCCTAGTCATTAAGTTTTACCCATCTGATGTgtgagtttac ... gtctttgcagGTATATCTCATATCTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGT
EST: gi|58666789|gb|CK055475.1|CK055475
EST:     GCAAATGTAGCAGGATCAAGCCTAGTCATTAAGTTTTACCCATCTGATGT                         GTATATCTCATATTTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGT
genomic: GCAAATGTAGCAGGATCAAGCCTAGTCATTAAGTTTTACCCATCTGATGTgtgagtttac ... gtctttgcagGTATATCTCATATCTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttatcccatctggtaatgttttgaattataatcatgttggtatgtctttgcagGTATATCTCATATCTACCTTTAGCTCACATCTATGAGAGAGTTAACCAGGTCTCAGTGGTTCACTATGGTGTTGCCATTGGTTTCTACCAAGGG
                                            tgtcttt  CT-rich tract
               taatgttttgaattat  TA-rich tract