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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACTTGTTGCCAAAAGTATCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccatagaattatatgtatgtagaattctcttggatgttgcatttgtggttatgacctttaatagtctacatctatatttatagttaactaagat...

Basic information

species Oryza sativa
transcript LOC_Os11g21990.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g21990.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM5G877316_T02 (Zea mays), 5'ss of exon 4
GAACTTGTTGCCAAAAGTATCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccatag--aattatatgtatg-tagaattctcttggatgttgcatttgtggttatgacctttaatagtctacatctatatttatagttaactaagat
||||| || ||||||||||| ||||| || || |||||||||||||||||||||||||||||||||||||||   |||  |  ||  |||| ||   |  ||||||| |  ||  |  || ||| ||| ||    ||  |  |   | | ||   || | ||    |   | 
GAACTCGTCGCCAAAAGTATTGAGTCTTCCGACCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtacggccagtggaaacaatatatacactgaaattctcattcattctcaatatgttgttttgttgcttctt--ttagcttttactcttgttgtatgttgcaa-

upper sequence: LOC_Os11g21990.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G012416_T04 (Zea mays), 5'ss of exon 4
GAACTTGTTGCCAAAAGTATCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttcca-tagaattatatgtatg-tagaattctcttggatgttgcatttgtggttatgacctttaatagtctacatctatatttatagttaactaagat---
|||||||| ||||||||||||||||| || || |||||||||||||||||||||||||||||||||||||||    || | |||  |||| ||   |  ||||||| |   |  |   | |||  || ||    || |  || |   | | | || |    |  | ||| |   
GAACTTGTCGCCAAAAGTATCGAGTCTTCAGACCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtacagtcagtggaacaatatataccctgaaattctcattcgttctcagtatgtaattttg----ttgactgttttagttttttttgacccctttc-aagttgca

upper sequence: LOC_Os11g21990.1 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ06557 (Selaginella moellendorffii), 5'ss of exon 4
GAACTTGTTGCCAAAAGTATCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccatagaattatatgtatgtagaattctcttggatgttgcatttgtggttatgacctttaatagtctacatctatatttatagttaactaagat
|| ||   |||||| ||||||||| ||||||||||  | |||||||| || ||||||||||| || |||||||      | ||   || | |  | | | | ||| |   || |  |||  |  | | |   ||  |  ||      | |                   
GAGCTGACTGCCAAGAGTATCGAGGCCTCGGATCTTGATTTCTCACGCTATGGTGACACCTTCTTCGAGgtat----ggataagcttaagaacttcgcagtttctcg---gtggagtttaggagtctcaaacttgtttttcctttcgtttgccag--------------

upper sequence: LOC_Os11g21990.1 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ31357 (Selaginella moellendorffii), 5'ss of exon 4
GAACTTGTTGCCAAAAGTATCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccatagaattatatgtatgtagaattctcttggatgttgcatttgtggttatgacctttaatagtctacatctatatttatagttaactaagat
|| ||   |||||| ||||||||| ||||||||||  | |||||||| || ||||||||||| || |||||||      | ||   || | | || | | | ||| |   || |  |||  |  | | |   ||  |  | | | |   | ||   ||           
GAGCTGACTGCCAAGAGTATCGAGGCCTCGGATCTTGATTTCTCACGCTATGGTGACACCTTCTTCGAGgtat----ggataagcttaagaacgtcgcagtttctcg---gtggagtttaggagtctcaaacttgtt--ttttctttcgt-ttgccag-----------

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|33796511|gb|CF324122.1|CF324122
EST:     TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG                         GTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
genomic: TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccat ... aaaactgcagGTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
EST: gi|58676820|gb|CK065507.1|CK065507
EST:     TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG                         GTTGTGTTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
genomic: TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccat ... aaaactgcagGTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
EST: gi|8594697|gb|AU093235.1|AU093235
EST:     TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG                         GTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
genomic: TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccat ... aaaactgcagGTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
EST: gi|29665731|gb|CB662006.1|CB662006
EST:     TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG                         GTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
genomic: TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccat ... aaaactgcagGTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
EST: gi|58689644|gb|CK078331.1|CK078331
EST:     TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG                         GTTGTGTTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
genomic: TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccat ... aaaactgcagGTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
EST: gi|701897|gb|D48188.1|D48188
EST:     TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG                         GTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
genomic: TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccat ... aaaactgcagGTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
EST: gi|33801526|gb|CF326635.1|CF326635
EST:     TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG                         GTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
genomic: TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccat ... aaaactgcagGTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
EST: gi|5004597|gb|AU069772.1|AU069772
EST:     TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG                         GTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
genomic: TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccat ... aaaactgcagGTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
EST: gi|117231433|gb|CT842219.1|CT842219
EST:     TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG                         GTTGTGTTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
genomic: TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccat ... aaaactgcagGTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAAACCTGAGGAA
EST: gi|88729881|gb|CI753102.1|CI753102
EST:     TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG                         GTTGTATTCATTGGAGGGCGCACTCAGCCTGGCANAATAAA
genomic: TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccat ... aaaactgcagGTTGTATTCATTGGAGGGCGCACTCAGCCTGGCACAATAAA
EST: gi|58601558|gb|CK012086.1|CK012086
EST:     TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAG                         GTTGTGTTCATTGGAGGGCGCACT
genomic: TCGAGTCCTCGGATCTCAACTTCTCACGTTACGGTGACACCTTTTTTGAGgtatttccat ... aaaactgcagGTTGTATTCATTGGAGGGCGCACT