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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgattgatcatctgtattcaacttattagtttttttttttgtaatcataatttgttccaaaaattctaatggtatttatttttgacttatcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA

Basic information

species Oryza sativa
transcript LOC_Os09g07830.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g07830.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G085474_T04 (Zea mays), 3'ss of exon 11
gtatgattgatcatctgtattcaacttattagtttttttttttgtaatcataatttgttccaaaaattctaatggtatttatttttgacttatcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
             | |||| |  |||  | ||   || ||| | | |  |||||    |       || ||||  ||| |||||||   ||   |||||||||||| |||||||||||||||||||||||||| |||||||||
------------gtatgtaat-gactactgagagcttctttctctga--ataatcgactt------ttgtaataatatctatttttactttg--aatacagGCTGTCGCACTTGCAAATCAAAAGCTTCTTGGGATTCCTTCA

upper sequence: LOC_Os09g07830.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM5G866758_T02 (Zea mays), 3'ss of exon 11
gtatg-attgatcatctgt-attcaacttatt----agtttttttttttgtaatcataatttgttcca---aaaattctaatggtatttat----ttttgacttatcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
||||| |||||   ||| | | |||  || ||    ||  |||| || || | | | | ||| ||  |   |  | | |  | ||| | ||    |||| |||| |||||| |||||||||| |||||||||||||| ||||||||||||||||||
gtatgcattgagtttcttttactcacattttttgtaagccttttgttatgcattgagagtttattttacttattactttttttgtaataatgtcttttttacttgtcaatatagGCTGTTGCGCTTGCAAATCAAAAACTTCTTGGAATTCCTTCA

upper sequence: LOC_Os09g07830.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM5G830250_T01 (Zea mays), 3'ss of exon 9
gtatg-attgatcatctgtattca------acttattag--tttttttttttgtaatcataatttgttccaa--aaattctaatggtattta-------tttttgacttatcaa--tacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
||||| ||| |   | | ||| ||      | || |||   |||||| || || | | | | || |||  |    | | || ||  | |||         |||| |||||||||  ||||||||||||||||||||||||||||||| |||||||||||||||
gtatgtattcagtttttttatccactaaatattttttaagattttttgttatgcattgagagttagttttacttgattgcttatttttttttgaaatgtctttttacttatcaaaatacagGCTGTTGCACTTGCAAATCAAAAGCTCCTTGGAATTCCTTCA

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|86536502|gb|CI176708.1|CI176708
EST:     TGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: TGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88256251|gb|CI358639.1|CI358639
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88267020|gb|CI378955.1|CI378955
EST:     AATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: AATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|86867692|gb|CI342669.1|CI342669
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88271010|gb|CI386865.1|CI386865
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88270745|gb|CI386003.1|CI386003
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|27410210|gb|CA923280.1|CA923280
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88243342|gb|CI244464.1|CI244464
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|86412530|gb|CI066935.1|CI066935
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88468574|gb|CI515056.1|CI515056
EST:     TTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGG-ATTCCTTCA
genomic: TTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88319137|gb|CI513201.1|CI513201
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88993566|gb|CI110387.1|CI110387
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88436026|gb|CI516562.1|CI516562
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         G
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacag-
EST: gi|88436026|gb|CI516562.1|CI516562
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         G
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacag-
EST: gi|29640958|gb|CB645965.1|CB645965
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|86498219|gb|CI140852.1|CI140852
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|87020189|gb|CI259259.1|CI259259
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88907680|gb|CI091078.1|CI091078
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88265504|gb|CI376406.1|CI376406
EST:     CTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: CTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88830971|gb|CI080395.1|CI080395
EST:     GCTGGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|33683367|gb|CF311606.1|CF311606
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88906443|gb|CI375515.1|CI375515
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88267537|gb|CI379472.1|CI379472
EST:     GAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88839196|gb|CI378120.1|CI378120
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         C
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacag-
EST: gi|88839196|gb|CI378120.1|CI378120
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         C
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacag-
EST: gi|5607308|gb|AU075980.1|AU075980
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|86431389|gb|CI085000.1|CI085000
EST:     GCTTGGAGTCTTCTCGTGTTGAGTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|88466571|gb|CI532378.1|CI532378
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|89182185|gb|CI113554.1|CI113554
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
EST: gi|86486603|gb|CI129236.1|CI129236
EST:     GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCA                         GCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
genomic: GCTTGGAGTCTTCTCGTGTTGATTACTATGAAATTAATGAAGCCTTTTCAgtatgattga ... atcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcataatttgttccaaaaattctaatggtatttatttttgacttatcaatacagGCTGTTGCACTTGCAAATCAAAAGCTTCTTGGAATTCCTTCA
               aaaaattctaatggta  TA-rich tract