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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGAATACGTTGATAGCTCTTGCATAAAAGTGGTGGAGGGAGGCGTTCCAGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttcttatcttgcatagttttccagtatgctaatgatttttttttttttttgctttagctgctgggtacttcactaaattattcatccattctgttttgctgttaagacgctaaagtgtagatattcctttgaaactgcag

Basic information

species Oryza sativa
transcript LOC_Os11g08300.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g08300.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G060800_T02 (Zea mays), 5'ss of exon 3
CCTGAATACGTTGATAGCTCTTGCATAAAAGTGGTGGAGGGAGGCGTTCCAGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttcttatcttgcatagttttccagtatgct-aatgatttttttttttttttgctttagctgctgggtacttcactaaattattcatccattctgttttgctgttaagacgctaaagtgtagatattcctttgaaactgcag
|| || || ||||| | ||| || || ||||| ||||||||| ||||||||||||||||||||||||| ||||| |  |||||||||||||||||||||||| || |||||       || |||||       ||| | ||||| ||||  ||| ||   |       || |||       ||  |  ||    | || |  | |||                                        
CCCGAGTATGTTGACAACTCCTGTATTAAAGTTGTGGAGGGAAGCGTTCCAGAAACAACCGCACTCTTGGAACAGAGATGGGATAAGATCTTCTACACAGgtcaagttcttgaaacctatggtttttttcatggctcagtgattcttttagtttcttagatacttgattgagta-------aagatcgtcgcagactcagcat-gcta---------------------------------------

upper sequence: LOC_Os11g08300.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G118800_T01 (Zea mays), 5'ss of exon 4
CCTGAATACGTTGATAGCTCTTGCATAAAAGTGGTGGAGGGAGGCGTTCCAGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttcttatcttgcatagttttccagtatgctaatgatttttttttttttttgctttagctgctgggtacttcactaaattattcatccatt---ctgttttgctg-------ttaagacgctaaagtgtagatattcctt-----tgaaactgcag
|| || |||||||||| ||| || || ||||| ||||||||||||||| ||||||||||| ||||| | ||||| |  ||||||||||||||||||||||||  | ||||||      ||   ||| || |       |||||  |    | ||    ||      | |   |  |    |  |  ||   ||||    | |||  ||         ||  ||  || |  |||| ||  |  |       |||  | |||
CCCGAGTACGTTGATAACTCCTGTATTAAAGTCGTGGAGGGAGGCGTTGCAGAAACAACCTCACTCCTGGAACAGAGATGGGATAAGATCTTCTACACAGgtcgagttcttagtacctatgaattttca-tggctcggtgattcctaggctgttaaatttgtagaaccgtacatgtagtcatgtatttagcccatcacacagttacgcaaatagaaattgggattctgacatgtatattgttttgacgaacgaacttccag

upper sequence: LOC_Os11g08300.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA06G12010.1 (Glycine max), 5'ss of exon 4
CCTGAATACGTTGATAGCTCTTGCATAAAAGTGGTGGAGGGAGGCGTTCCAGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttcttatcttgcatagttttccagtatgctaatgatttttttttttttttgctttagctgctgggtacttcactaaattattcatccattctgttttgctgttaagacgctaaagtgtagatattcctttgaaactgcag
    | ||   ||||| ||| |  |||| ||| |||||||| |  |||   |||||||||||||| ||  | ||||||||||| ||||| |||||||||||||   ||||| | |       |||  || ||| ||| |     |   || |    |  | | |       |   |  |||| ||   |||  |          | |  |  |   ||||   |  ||| | ||| | |     ||
GAGAAGTATTGTGATAACTCATTTATAAGAGTTGTGGAGGGGGCAGTTGATGAAACAACCGCACTATTGCAGCAAAAGTGGGACAAGATTTTCTACACAGgtt--tttcttctttc------tttatcattattctagtttgaatcccttctcagggactaaacgtacaaattaatgcctaatttgaacataaa---------acagcaagaaaattaaa---tgaataattctt-ggattgttag

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|29680879|gb|CB677154.1|CB677154
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|29660175|gb|CB656450.1|CB656450
EST:     AGAAACAACCGCACTCTTATAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|58695219|gb|CK083906.1|CK083906
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCA
EST: gi|58604207|gb|CK014735.1|CK014735
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|29660180|gb|CB656455.1|CB656455
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|29645892|gb|CB650899.1|CB650899
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|58594363|gb|CF992671.1|CF992671
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|33794991|gb|CF323375.1|CF323375
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|58591471|gb|CF989779.1|CF989779
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|29643971|gb|CB648978.1|CB648978
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|58689115|gb|CK077802.1|CK077802
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|29665740|gb|CB662015.1|CB662015
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAACGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|58691193|gb|CK079880.1|CK079880
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|58691525|gb|CK080212.1|CK080212
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|58695788|gb|CK084475.1|CK084475
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|58690002|gb|CK078689.1|CK078689
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|25806016|gb|CA761977.1|CA761977
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|33675935|gb|CF304174.1|CF304174
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|29630144|gb|CB635153.1|CB635153
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|29681705|gb|CB677980.1|CB677980
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|33800254|gb|CF325992.1|CF325992
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|33675797|gb|CF304036.1|CF304036
EST:     GCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: GCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
EST: gi|88199260|gb|CI199110.1|CI199110
EST:     AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAG                         GTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA
genomic: AGAAACAACCGCACTCTTAGAACAAAAGTGGGATAAGATCTTCTACACAGgttaacttct ... gaaactgcagGTAGCGGAAATGTGGGCCGCATAGTGATGGCAGCAGCTGCAAAGCATCTTA