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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aggaagtacttattaatatatgatgattcgttagtacctacttaattgagctattttaatcctactactgactgactaattaatttgtgtgttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAACTCCATATTGCCTCTGCTTGACAAGGCCAACACCGTTGTTCCTGCCAGAC

Basic information

species Oryza sativa
transcript LOC_Os12g02980.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g02980.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G143971_T01 (Zea mays), 3'ss of exon 1
----------------aggaagtacttattaata-tatgatgattcgttagtacctacttaattgagctattttaatcctac-tactgactgactaattaa--tttgtgtgttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAACTCCATATTGCCTCTGCTTGACAAGGCCAACACCGTTGTTCCTGCCAGAC
                 |  ||||||    | || | | ||||   |  |     |  ||  |||  ||||  |     ||  ||  || | |  |   ||  ||||| ||||| || ||||  | || ||||||||||| ||||||||||  || || || || ||||| |||||  ||||||| |||||||||||||| |  || || |||      |
gtatatatgtgtggtttgacagtactgcacactactgtaatgaga-gcaaacttttgtttg-ttgctctatagtctatatatatatggattaaggagcaaacttttgtttgttgctgcagGTAAAGCCCGGGCTGAGCTCATACGCTGGACAACCCCAAGAGGCTGCAAATTCCATGCTGCCTCTTCTTGACAAGGCCAAGAGTGTCGTCCCTAAACAGC

upper sequence: LOC_Os12g02980.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G006762_T01 (Zea mays), 3'ss of exon 1
aggaagtacttattaatatatgatgattcgttagtacctacttaattgagctattttaatcctac-tactgactgactaattaa--tttgtgtgttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAACTCCATATTGCCTCTGCTTGACAAGGCCAACACCGTTGTTCCTGCCAGAC
            |  ||||||| || || |   | | | |  |  |  |  |||  |     ||  ||  || | |  |   ||  ||||| ||||| || ||||| | || ||||||||||| |||||||||| ||| || || || ||||| |||||  ||||||| |||||||||||||| | ||  || |||      |
-----------gtatatatatg-tggtttgacggcatcgaggtgttctatatatagtctatatatatatggattaaggagcaaacttttgtttgttgctgcagGTGAAGCCCGGGCTGAGCTCATACGCTGGACATCCCCAAGAGGCTGCAAATTCCATGCTGCCTCTTCTTGACAAGGCCAAGAGCGCCGTCCCTAAACAGC
















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|88718255|gb|CI741344.1|CI741344
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|163928679|gb|EG710928.1|EG710928
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|88693195|gb|CI736770.1|CI736770
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|88301463|gb|CI597156.1|CI597156
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|58594578|gb|CF992886.1|CF992886
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|29657813|gb|CB654088.1|CB654088
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|88431154|gb|CI574325.1|CI574325
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATC-TGGGCTGAGCTCCTACGCTGGACGTC-TCAGGATGGCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|29660868|gb|CB657143.1|CB657143
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|58668446|gb|CK057132.1|CK057132
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|29619276|gb|CB624288.1|CB624288
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|88399133|gb|CI603800.1|CI603800
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|66924334|gb|CX111182.1|CX111182
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|88391706|gb|CI600895.1|CI600895
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|88717473|gb|CI740983.1|CI740983
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|58601501|gb|CK012029.1|CK012029
EST:     ACAAGCTGGAGCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|29616330|gb|CB621342.1|CB621342
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|4715162|gb|AU056279.1|AU056279
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|29616586|gb|CB621598.1|CB621598
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|88720452|gb|CI743751.1|CI743751
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACAACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgagctattttaatcctactactgactgactaattaatttgtgtgttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAACTCCATATTGCCTCTGCTTGACAAGGCCAACACCGTTGTTCCTGCCAGAC
                           tgactaattaattt  TA-rich tract