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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gccttaaaaacactgaacaacagtactgtcaactatgtacaaccttgtggacggcttcattcttttgtgagacatactgatctctgacctcttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTAGTTGATGAATACAAGGCCTGTGAGTCGCCAGACTACATTAAATGGGGAA

Basic information

species Zea mays
transcript GRMZM2G085970_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G085970_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g06450.2 (Oryza sativa), 3'ss of exon 9
gccttaaaaacactgaacaacagtactgtca--actatgtacaaccttgtgg----acggcttcattcttttgtgagacatactgatc--tctgacctcttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTAGTTGATGAATACAAGGCCTGTGAGTCGCCAGACTACATTAAATGGGGAA
             ||||    | | || |||  ||||| ||  | ||||||     ||   | |||| || |||   | ||||| | |  | || |||||   | ||||| |||||||||||||||||||||||||||||||| |||||||||||| |||||||||| |||||||| || || || ||||||||||| |||||||| |
--------tttcttgaagtgaaatgctttcagtactatatatgatcttgtgaggaaacctgtccattattctgtccaaaatactcaacgttttggcctctctatacagGACAATGATCTCTCTGAATTTGATGAATCTCGAGAAATAATAGAGAGCTTAGTTGATGAGTACAAGGCTTGCGAATCACCAGACTACATCAAATGGGGGA

upper sequence: GRMZM2G085970_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA03G41670.2 (Glycine max), 3'ss of exon 9
--------------gccttaaaaaca--ctgaacaacagtactgtcaactatgtacaaccttgtggacggcttcattcttttgtgagacatactgatc--tctgacctcttc----------gtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTAGTTGATGAATACAAGGCCTGTGAGTCGCCAGACTACATTAAATGGGGAA
                ||||   | |  ||||    ||      ||   ||| |||     | ||| | |   |||  |  ||| | || |     |   | |||   | ||          |  ||||||||||| ||||| ||||||||||||||  | || ||||| |||||  | |||||||||||||||||||||||||| ||||| || || ||||||||||
gtaagtgtcacaatttcttatggataatctgatatccatctgcatctgttatatac--ttctttggcctgtagcatcttcatgtaatacttgtcatttcatgtgatgacatcaataaaaaatggacagGATAATGACCTCTCAGAATTTGATGAATCAAGGGACATAATTGAGAGTTTGGTTGATGAATACAAGGCCTGTGAGTCCCCAGATTATATCAAATGGGGAA

upper sequence: GRMZM2G085970_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA19G44260.2 (Glycine max), 3'ss of exon 10
--------------gccttaaaaacactgaacaacagtactgtcaactatgtacaaccttgtggacggcttcattcttttgtgagacatactgatc--tctgacctcttc----------gtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTAGTTGATGAATACAAGGCCTGTGAGTCGCCAGACTACATTAAATGGGGAA
                | ||   | |    | | |  | |||       | || |    | ||| | |   |||  |  ||| | || |     |   | |||   | ||          |  ||||||||||| ||||| ||||||||||||||  | || ||||| ||||   | |||||||||||||||||||||||||| ||||| || || ||||||||||
gtaagtgtgatagtttcatatggatatctgatatctat-ctgcatttgttatatacttctttggcctgtagcatcttcatgtaatacctgtcatttcatgtgatgacatcaataaaaaatggacagGATAATGACCTCTCAGAATTTGATGAATCAAGGGACATAATTGAGACTTTGGTTGATGAATACAAGGCCTGTGAGTCCCCAGATTATATCAAATGGGGAA

upper sequence: GRMZM2G085970_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT5G05620.1 (Arabidopsis thaliana), 3'ss of exon 8
--gccttaaaaacactga-acaacag-tactgtcaactatgtacaaccttgtggacggcttcattcttttgtga-gacatactgatctctgacctcttcgtg----cagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTAGTTGATGAATACAAGGCCTGTGAGTCGCCAGACTACATTAAATGGGGAA
     || |   | |  | | | | | |  |||  | |     | ||| | |     || |      ||  ||  || ||  |||      || | ||  |     ||||| |||||||| || || |||||||||||  | || ||||| |||||  | || || ||||| |||||||||||||| ||||| ||||| ||||||||||
gtaagttgactgctcaaatatatcggctgatgtttagtgcaacccaccctattattagcattgacagttaatgttgaaatcatgagaatctacatgttgatatggacagGACAATGATCTTTCAGAGTTTGATGAATCAAGGGACATAATTGAGAGTTTGGTAGACGAATATAAGGCCTGTGAGTCTCCAGATTACATCAAATGGGGAA

upper sequence: GRMZM2G085970_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT3G61650.1 (Arabidopsis thaliana), 3'ss of exon 8
gccttaaaaacactgaacaacagtactg-tcaactatgtacaaccttgtggacggcttcattcttttgtgagacatactgatctctgacctcttcgtg----------cagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTAGTTGATGAATACAAGGCCTGTGAGTCGCCAGACTACATTAAATGGGGAA
                  ||    |||| |||| |||  |   | ||||    ||||    | ||| |||  ||| ||  | || ||||   | | ||          ||||| |||||||| || || ||||| |||||  | || ||||| |||||  | || ||||||||||||||||||||||| ||||| ||||| ||||||||||
----------------gtaagttgactgctcaagtata-atggctttgt--ttggct--gatgtttagtgcaacaaacccagctttgacagttacatgttgatatgaacagGACAATGATCTTTCAGAGTTTGACGAATCAAGGGACATAATTGAGAGTTTGGTAGATGAATACAAGGCCTGTGAGTCTCCAGATTACATCAAATGGGGAA

upper sequence: GRMZM2G085970_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv15s0046g01350.t01 (Vitis vinifera), 3'ss of exon 9
-----gccttaaaaacactgaacaacag-tactgtcaactatgtacaaccttgtggacggcttcattcttttgtgagacatactgatctctgacctcttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTAGTTGATGAATACAAGGCCTGTGAGTCGCCAGACTACATTAAATGGGGAA
        | |||| |  |||   |  | | |  ||     ||| |    || | ||  | ||   | ||   |||| |  | |    | |||    |  | |||||| |||||||| || ||||||||||||||  |||| || || |||||  | ||||||||||||||||| || ||||| |||||||| ||||||||||| |
gtgaaaagtgaaaatccttgatagatggattccctctgggttgtgctggtttatagagtggtt--gttttacatgagtctcatttcaatgtga----tgtgggcagGACAATGATCTTTCAGAATTTGATGAATCAAGAGACATTATTGAGAGTTTGGTTGATGAATACAAGGCATGCGAGTCCCCAGACTATATTAAATGGGGGA

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|211101013|gb|FL440822.1|FL440822
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|50330999|gb|CO526125.1|CO526125
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|37389993|gb|CF632221.1|CF632221
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|22819393|gb|BU499483.1|BU499483
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTT
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTT
EST: gi|12971802|gb|BG267665.1|BG267665
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|32933127|gb|CF037939.1|CF037939
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTATGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|211056566|gb|FL481088.1|FL481088
EST:     AGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|93014105|gb|EB639625.1|EB639625
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|4647086|gb|AI622161.1|AI622161
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|22542648|gb|BU093086.1|BU093086
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|5762141|gb|AI967189.1|AI967189
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|76020288|gb|DT947458.1|DT947458
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTTTTTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|22935439|gb|BU571714.1|BU571714
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
EST: gi|83278659|gb|DV942667.1|DV942667
EST:     GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCA                         GATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA
genomic: GGAAAAAGCAGGCTTTTCTTGACAACTATAGGAAATTCCCAATGTTTGCAgtaagaacat ... cttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtggacggcttcattcttttgtgagacatactgatctctgacctcttcgtgcagGATAATGATCTCTCTGAATTTGATGAATCTCGAGAGATAATAGAGAGCCTAGTTGATGAATACAAGGCCTGTGAGTCGCCAGACTACATTAAATGGGGAA
                                   tctctgacctcttc  CT-rich tract
             attctttt  TA-rich tract