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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATCTCCTTTCTGTAAAATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaataacgttacaccaatgacaaaattgctggatatgctgttagctatcatcagtgttttttcctgctgtaaaatcacaaccctgtatcacaaagccttgcaattgcaagcactacactcttggagtaactggtagctgaaaatttctgcag

Basic information

species Oryza sativa
transcript LOC_Os08g44400.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g44400.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G085000_T04 (Zea mays), 5'ss of exon 7
GGATCTCCTTTCTGTAAAATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata-acgtta----caccaatgacaaaattgctggatatgctgttagctatcatcagtgttttttcctgctgtaaaatcacaaccctgtatcacaaagccttgcaattgcaagcactacactcttggagtaactggtagctgaaaatt---tctgcag
|||||||| ||||||| | ||||||||||||| |||||||| || || ||||||||  |||||||||||||  ||| | || |||    ||| | | |   ||| ||   |||      | |      |   |     |  |    ||| ||| |||     || |    |    |    ||||  |    | | |     ||||   | ||| |||||||||    ||||||
GGATCTCCCTTCTGTAGATTAGTACGAGAGACGCTTGTTGAGTTGGAATTGCCACATCTGCTACACAGgtatccaaaatactttaaaaccacaagtcaacgaatggcattataacagcgtggaagctgttgctaaacatcaccttagtagaattacacattagtttggtta---ttctggattgagatatgtgctcgacaagagtg-ttagtaactgaaaattattcctgcag

upper sequence: LOC_Os08g44400.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G022866_T01 (Zea mays), 5'ss of exon 9
GGATCTCCTTTCTGTAAAATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaataacgtta------caccaatgacaaaattgct---ggatatgctgttagctatcatcagtgttttttcctgctgtaaaatcacaacc-ctgtatcacaaagccttgcaattgcaagcactacactcttggagtaactggtagctgaaaatttctgcag---
|||||||| ||||||||| ||||||||||||| ||||| || || || || |||||  |||||||||||||  ||| ||   |       ||| | | ||  ||| ||    | ||          ||   | | ||   |   | |    ||  |  |  ||| || ||   ||   | |    | ||  |    | | ||    ||||   | ||| ||  || || || | |   
GGATCTCCCTTCTGTAAATTAGTACGAGAGACGCTTGTCGAGTTGGAATTACCACATCTGCTACACAGgtatccaaaaatactttaaaaccacaagtcactgaatggcatcagaattcagaacagcctgcaagctgttgctaaacttaacctagtagaattaccactttagttcagttcttctggactgagatatgtgctctgcaagagtg-ttagtaactagaagttactcctgcag

upper sequence: LOC_Os08g44400.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM5G825090_T02 (Zea mays), 5'ss of exon 10
GGATCTCCTTTCTGTAAAATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata-acgtta----caccaatgacaaaattgct---ggatatgctgttagctatcatcagtgttttttcctgctgtaaaatcacaacc-ctgtatcacaaagccttgcaattgcaagcactacactcttggagtaactggtagctgaaaatttctgcag---
|||||||| ||||||||| ||||||||||||| ||||| || || || ||||||||  |||||||||||||  ||| | || |||    ||| | | ||  ||| ||    | ||          ||   | | ||   |   | |    ||  |  |  | | || ||   ||   | |    | ||  |    | | ||    ||||   | ||| ||  || || || | |   
GGATCTCCCTTCTGTAAATTAGTACGAGAGACACTTGTCGAGTTGGAATTGCCACATCTGCTACACAGgtatccaaaatactttaaaaccacaagtcactgaatggcatcagaattcagaacagcctgcaagctgttgctaaacttaacctagtagaattatcactttagttcagttcttctggactgagatatgtgctctgcaagagtg-ttagtaactagaagttactcctgcag

upper sequence: LOC_Os08g44400.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G085000_T02 (Zea mays), 5'ss of exon 9
--------------------------------GGATCTCCTTTCTGTAAAATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata-acgtta----caccaatgacaaaattgctggatatgctgttagctatcatcagtgttttttcctgctgtaaaatcacaaccctgtatcacaaagccttgcaattgcaagcactacactcttggagtaactggtagctgaaaatt---tctgcag
                                |||||||| ||||||| | ||||||||||||| |||||||| || || ||||||||  |||||||||||||  ||| | || |||    ||| | | |   ||| ||   |||      | |      |   |     |  |    ||| ||| |||     || |    |    |    ||||  |    | | |     ||||   | ||| |||||||||    ||||||
GAGTCTGAATGGCTGATGATCTATTTTCTCAGGGATCTCCCTTCTGTAGATTAGTACGAGAGACGCTTGTTGAGTTGGAATTGCCACATCTGCTACACAGgtatccaaaatactttaaaaccacaagtcaacgaatggcattataacagcgtggaagctgttgctaaacatcaccttagtagaattacacattagtttggtta---ttctggattgagatatgtgctcgacaagagtg-ttagtaactgaaaattattcctgcag

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|86899723|gb|CI327545.1|CI327545
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|55408882|gb|CV721258.1|CV721258
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|86834825|gb|CI345909.1|CI345909
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|313084043|gb|HO213826.1|HO213826
EST:     ACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|88449108|gb|CI560569.1|CI560569
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|86872687|gb|CI341897.1|CI341897
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|86843061|gb|CI342256.1|CI342256
EST:     TAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACACG                         CTGTGCACCCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCA
genomic: TAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACA-Ggtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCA
EST: gi|33821435|gb|CF336529.1|CF336529
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|29687876|gb|CB684151.1|CB684151
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|58589659|gb|CF987967.1|CF987967
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|38478016|gb|CF962149.1|CF962149
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCGGACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|58593409|gb|CF991717.1|CF991717
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|38473795|gb|CF957927.1|CF957927
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|27577571|gb|CB000266.1|CB000266
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|88528036|gb|CI456238.1|CI456238
EST:     CTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: CTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|88996530|gb|CI260034.1|CI260034
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|27548923|gb|CA767585.2|CA767585
EST:     ATAGTACGGGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|12623212|gb|AU173425.1|AU173425
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|29685102|gb|CB681377.1|CB681377
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|88993826|gb|CI112730.1|CI112730
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
EST: gi|33823734|gb|CF337673.1|CF337673
EST:     ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGTTACACAG                         CTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT
genomic: ATAGTACGAGAGACCCTTGTTGAATTAGAGTTGCCACACTTGCTACACAGgtactcaata ... atttctgcagCTGTGCACGCGGCAGCCCCAGGAGACAGGAATTTTTGAAGAAATACGGCAT