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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatgctggttgttgtcgatttgttgtgatcatgtccatttgttaatgtataactgatctttttggcttaatatgactattattatttccttgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATCATCAAATCGACAAATATGAAGTGTCTAACACCACC

Basic information

species Oryza sativa
transcript LOC_Os11g07280.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g07280.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G392003_T01 (Zea mays), 3'ss of exon 2
tatgctggttgttgtcgatttgttgtgatcatgtccatttgttaatgtataactgatcttttt----ggcttaatatgactattattatttcctt----gttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATCATCAAATCGACAAATATGAAGTGTCTAACACCACC
       ||||  ||| |      |    |||||    |||    | ||| ||  || ||| |    |  | | |||   ||| | ||||   ||    ||| || ||||||| ||||| ||||| || ||||||||||||||||| ||| ||||||| || || || ||||| ||||||||||||||||||||
-------gttgacgtcaaacaaa-gcacacatgtagtcttgggtttttatgacccatttttcttatcgattaattattcttatgactattgttttcaatgtttatcagGTGGCGGTGAATACTGTGATCCAGGATGAGAAGGAATTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACC
















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|87039344|gb|CI193966.1|CI193966
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86520094|gb|CI160300.1|CI160300
EST:     GAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: GAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|29630805|gb|CB635814.1|CB635814
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86521223|gb|CI161429.1|CI161429
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCCT-TGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATAT
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGG-CTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATAT
EST: gi|87016415|gb|CI273625.1|CI273625
EST:     ATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: ATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86858225|gb|CI271117.1|CI271117
EST:     GATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: GATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|88236124|gb|CI235326.1|CI235326
EST:     GATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: GATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|88229076|gb|CI228952.1|CI228952
EST:     TGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: TGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|33676043|gb|CF304282.1|CF304282
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86478378|gb|CI121011.1|CI121011
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|88197668|gb|CI197518.1|CI197518
EST:     CCGATGTTGCTTTCCGGAACATGTGGCCAGAATTTGAGTGGGAAAACAAG                         GTGTCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86478308|gb|CI120941.1|CI120941
EST:     TTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: TTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|87038936|gb|CI193558.1|CI193558
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86597005|gb|CI272600.1|CI272600
EST:     TGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: TGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|87035862|gb|CI190484.1|CI190484
EST:     TTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: TTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|87014992|gb|CI271591.1|CI271591
EST:     CCGATGTTGCTTTCCAGAACATGTGGCCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACCGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|88198577|gb|CI198427.1|CI198427
EST:     TCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: TCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|87014898|gb|CI271497.1|CI271497
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|88198630|gb|CI198480.1|CI198480
EST:     ATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: ATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86592998|gb|CI270555.1|CI270555
EST:     CCGATGTTGC-TT-CGGAACATGTGGCCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTTGTCATTCAGGATGAGAAGGAATTTTTGGATCATAT
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACAC-TGTCATTCAGGATGAGAAGGAATTTTTGGATCATAT
EST: gi|29665823|gb|CB662098.1|CB662098
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCANGATG
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATG
EST: gi|51946041|gb|CV152382.1|CV152382
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCANGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|87036189|gb|CI190811.1|CI190811
EST:     GTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: GTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|87040560|gb|CI195182.1|CI195182
EST:     TGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: TGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86597765|gb|CI274756.1|CI274756
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|88197993|gb|CI197843.1|CI197843
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|87039782|gb|CI194404.1|CI194404
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86521048|gb|CI161254.1|CI161254
EST:     CCGATGTTGCTTTCCGGAACATGTGGTCAGAATTTGAGTGGGAAAACAAG                         GTGGCCGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|87040139|gb|CI193348.1|CI193348
EST:     GAGTGGGAAAACCAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATAT
genomic: GAGTGGGAAAA-CAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATAT
EST: gi|87036024|gb|CI189471.1|CI189471
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86481313|gb|CI123946.1|CI123946
EST:     CCGATGTTGCTTTCCGGAACATGTGGCCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|87038971|gb|CI193593.1|CI193593
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|88198201|gb|CI198051.1|CI198051
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAANACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|88234858|gb|CI232709.1|CI232709
EST:     ATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: ATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86859014|gb|CI276961.1|CI276961
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|86436845|gb|CI118567.1|CI118567
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|87036841|gb|CI191463.1|CI191463
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
EST: gi|87039000|gb|CI193622.1|CI193622
EST:     CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAG                         GTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC
genomic: CCGATGTTGCTTTCCGGAACATGTGGGCAGAATTTGAGTGGGAAAACAAGgtagggttct ... tgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtataactgatctttttggcttaatatgactattattatttccttgttcattagGTGGCTGTGAACACTGTCATTCAGGATGAGAAGGAATTTTTGGATCATATCATCAAATCGACAAATATGAAGTGTCTAACACCACC
                                    ttatttccttgttc  CT-rich tract
                     ttaatatgactattat  TA-rich tract