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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtacttattagatgcatttattttatgttctcttaaaatggaagtctattggcttttacatcatttggagaagcactgactaatagttagtagaagctgatatctccatttcatgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTCACTTATCACTCCTGTAAATCCTGCAAGCACATGGGGCCCGCTTATTTTT

Basic information

species Oryza sativa
transcript LOC_Os11g25980.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g25980.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G411940_T01 (Zea mays), 3'ss of exon 4
gtttgtacttattagatgcatttattttatgttctcttaaaatggaagtctattggcttttacatcatttggagaagcactgactaata--gttagtagaagctgatatctccatttcatgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTCACTTATCACTCCTGTAAATCCTGCAAGCACATGGGGCCCGCTTATTTTT
                || |   || | ||| | ||         |||  | || |   ||     | ||| | |||   | | |  ||    | | | ||| |  ||| |   |||  ||||||||||| ||||||||||||||||||||| ||||||| || || ||||| |||||||||||||||||||||||||||||||| || |||||||| ||||| |||
---------------ctgaaaaaatctcatgatttc---------aagcatgttagaccttgttgtaattgcataagt--taattggtacgaatggaaaaagttactatttat-tttggtgtttcagGCGCTTCATGAATCAATATTTCTTGTTGATAGCTTGTCTGCAACTATGGTCACTTATCACTCCTGTAAATCCTGCAAGTACCTGGGGCCCACTTATATTT

upper sequence: LOC_Os11g25980.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT5G44240.1 (Arabidopsis thaliana), 3'ss of exon 2
gtttgtacttattagatgcatttattttatgttctcttaaaatggaagtctattggcttttacatcatttggagaagcactgactaatagttagtagaagctgatatctccatttcatgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTCACTTATCACTCCTGTAAATCCTGCAAGCACATGGGGCCCGCTTATTTTT
           | |     ||| |||| || |  | ||  ||||    | |||    | |||| || |||         ||||  ||        |       || | |   |||  |||||||| || || ||||| || || || ||| |||| || ||||| || || |||||||||||||| ||||| ||||||||||| |||||||| ||| | || || 
----------gtaacgatgattcatttcatttagtgttctaatgttcttatatcta-tgttacgtctttt---------ctgatcaa--------aatgttctatctttttctttt-tgtttcagCCGGTTTATGAACCAGTACTTTTTGTTGATTGCTTGCCTTCAGCTATGGTCACTTATCACCCCTGTGAATCCTGCAAGTACATGGGGTCCGTTAATATTC
















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|88394093|gb|CI684763.1|CI684763
EST:     AGTACACCCTACTAAATTTCCTGCCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AGTACACCCTACTAAATTTCCTGCC-AAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88364266|gb|CI612215.1|CI612215
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAAGTATTTGTTGCTGATAGCATGCCTCCAACTGTGGT
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAA-TATTTCTTGCTGATAGCATGCCTCCAACTGTGGT
EST: gi|88396610|gb|CI601093.1|CI601093
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTC-AACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88463600|gb|CI696068.1|CI696068
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88592052|gb|CI710129.1|CI710129
EST:     AAGTACACCCTACTAAATTCCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTCCCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAA
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAA
EST: gi|88313652|gb|CI671784.1|CI671784
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88589387|gb|CI707258.1|CI707258
EST:     AGTACACCCTACTAAATTTCCTGCCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AGTACACCCTACTAAATTTCCTGCC-AAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88760044|gb|CI769600.1|CI769600
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGAT
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGAT
EST: gi|88578687|gb|CI687633.1|CI687633
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88761179|gb|CI770735.1|CI770735
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATG
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATG
EST: gi|88591834|gb|CI709889.1|CI709889
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAG
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAG
EST: gi|88388380|gb|CI683151.1|CI683151
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88342386|gb|CI645908.1|CI645908
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88410576|gb|CI686913.1|CI686913
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88576841|gb|CI673370.1|CI673370
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88419783|gb|CI686549.1|CI686549
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88578151|gb|CI674788.1|CI674788
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88729512|gb|CI753022.1|CI753022
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88589646|gb|CI708444.1|CI708444
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCT
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCT
EST: gi|88590118|gb|CI708947.1|CI708947
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAG
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAG
EST: gi|88581955|gb|CI699174.1|CI699174
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88591715|gb|CI709768.1|CI709768
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCT
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCT
EST: gi|88763055|gb|CI772611.1|CI772611
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTG
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTG
EST: gi|88391194|gb|CI595448.1|CI595448
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88581178|gb|CI698152.1|CI698152
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88335567|gb|CI642791.1|CI642791
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88579169|gb|CI688145.1|CI688145
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATA
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATA
EST: gi|88349321|gb|CI678299.1|CI678299
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88458060|gb|CI695011.1|CI695011
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88344390|gb|CI677432.1|CI677432
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88381490|gb|CI682146.1|CI682146
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTC
EST: gi|88588861|gb|CI706703.1|CI706703
EST:     AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAG                         GCGTTTCATGAATCAATATTTCTTG
genomic: AAGTACACCCTACTAAATTTCCTGCCAAAAAATCTATGGGAGCAATTCAGgtttgtactt ... catgtttcagGCGTTTCATGAATCAATATTTCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggagaagcactgactaatagttagtagaagctgatatctccatttcatgtttcagGCGTTTCATGAATCAATATTTCTTGCTGATAGCATGCCTCCAACTGTGGTCACTTATCACTCCTGTAAATCCTGCAAGCACATGGGGCCCGCTTATTTTT
                                    tctccatttc  CT-rich tract
              taatagtta  TA-rich tract