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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTATTGAGGGTGGGAAAGAACTTATTGAAGCTTGCAAACCAGCACTTGAATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacccacaactctgaagttattgtagtgcattattatttttttctgttctagaagattgatcctgactaatggttgagagttacgatattgcag

Basic information

species Oryza sativa
transcript LOC_Os01g38620.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g38620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G081924_T01 (Zea mays), 5'ss of exon 3
TGCTATTGAGGGTGGGAAAGAACTTATTGAAGCTTGCAAACCAGCACTTGAATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacccacaactctgaagttattgtagtgcattattatttttttctgttctagaagattg--atcctgactaa-tggttgagagtt-acga--tattgcag
||||||||||||||| |||||||||||| ||||||| || || |||||||| || ||  || ||||||||||||||||||| || ||||||||||| |||||||||||      | |  ||| || | |      ||  ||  |||||    || ||| ||||||    | ||||||| | ||| ||| || |  |  | ||||||
TGCTATTGAGGGTGGAAAAGAACTTATTCAAGCTTGTAAGCCCGCACTTGAGTCTGATCATATCACCAAAGTTATTCATGATTGTAAAAGGGACAGCGAGgtgcctaattatgcattgggaacttttagcttgctatgttttctttttgtccttttaggagattgtagacttgactaactagtttagactttatcactttttgcag

upper sequence: LOC_Os01g38620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G142984_T02 (Zea mays), 5'ss of exon 3
TGCTATTGAGGGTGGGAAAGAACTTATTGAAGCTTGCAAACCAGCACTTGAATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacccacaactctgaagttattgtagtgcattattatttttttctg-ttctagaagattg--atcctgactaat--ggttgagagttacga---tattgcag
||||||||||||||| |||||||||||| ||||||| || || |||||||| || ||  || ||||||||||||||||||| || |||||||||||||||||||||||      | |    |  | ||    |||  | ||   ||||| |  || ||| ||||||  | | |||||||   | || |   |||  |   | ||||||
TGCTATTGAGGGTGGAAAAGAACTTATTCAAGCTTGTAAGCCCGCACTTGAGTCTGATCATATCACCAAAGTTATTCATGATTGTAAAAGGGACAGTGAGgtgcctaatgttggatttgagaacttttagcttgctatgtttcctttttgtccttttaggagattgtaaacttgactaactagattaaactttatcacttttttgcag

upper sequence: LOC_Os01g38620.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G142984_T01 (Zea mays), 5'ss of exon 3
--------------------------------TGCTATTGAGGGTGGGAAAGAACTTATTGAAGCTTGCAAACCAGCACTTGAATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacccacaactctgaagttattgtagtgcattattatttttttctg-ttctagaagattg--atcctgactaat--ggttgagagttacga---tattgcag
                                ||||||||||||||| |||||||||||| ||||||| || || |||||||| || ||  || ||||||||||||||||||| || |||||||||||||||||||||||      | |    |  | ||    |||  | ||   ||||| |  || ||| ||||||  | | |||||||   | || |   |||  |   | ||||||
CTTGCATTCCCTGATGCTGTTTACCTAGTTGATGCTATTGAGGGTGGAAAAGAACTTATTCAAGCTTgtaagcccgcacttgagtctgatcatatcaccaaagttattcatgattgtaaaagggacagtgaggtgcctaatgttggatttgagaacttttagcttgctatgtttcctttttgtccttttaggagattgtaaacttgactaactagattaaactttatcacttttttgcag

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|218487804|gb|FG952787.1|FG952787
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|58594793|gb|CF993101.1|CF993101
EST:     AGGCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|27577389|gb|CB000084.1|CB000084
EST:     AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|218504651|gb|FG960768.1|FG960768
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|218486574|gb|FG956238.1|FG956238
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTC
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTC
EST: gi|33795398|gb|CF323569.1|CF323569
EST:     AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|58655403|gb|CK044083.1|CK044083
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|38472674|gb|CF956806.1|CF956806
EST:     CAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: CAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|86908033|gb|CI298799.1|CI298799
EST:     AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|27577966|gb|CB000661.1|CB000661
EST:     AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|218495275|gb|FG966279.1|FG966279
EST:     GTCAGAATATGTCACCAAAGTTATCTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: ATCAGAATATGTCACCAAAGTTAT-TCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|218500721|gb|FG955417.1|FG955417
EST:     TCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: TCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|33793613|gb|CF322690.1|CF322690
EST:     AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|38473357|gb|CF957489.1|CF957489
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|38478638|gb|CF962771.1|CF962771
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         T
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcag-
EST: gi|38478638|gb|CF962771.1|CF962771
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         T
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcag-
EST: gi|58588638|gb|CF986946.1|CF986946
EST:     AGGCAGAATATGTCACCAAAGTTATTCATGACTGCCAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|313080792|gb|HO213589.1|HO213589
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|27577933|gb|CB000628.1|CB000628
EST:     AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACCCTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|58598824|gb|CK009352.1|CK009352
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|218483500|gb|FG948234.1|FG948234
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|25801465|gb|CA757426.1|CA757426
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
EST: gi|218502513|gb|FG958404.1|FG958404
EST:     AGTCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAG                         GCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG
genomic: AATCAGAATATGTCACCAAAGTTATTCATGACTGCAAAAGGGACAGTGAGgtgcctaacc ... gatattgcagGCTCTGTATTTCCAGTTTGGCATAAAATTGCATAATGTGATGGATACACAG