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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACGACTACCGGCTGTTCTGTGGAGATCTAGGCAACGAAGTTAATGATGATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatccctttttatccaaaaggcttatttgtagcaaaacttgttcaacaatccaattattgttatgcaatacctattgtcaaattcttttaggggc...

Basic information

species Zea mays
transcript GRMZM2G016106_T02
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G016106_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os08g45240.4 (Oryza sativa), 5'ss of exon 2
AGACGACTACCGGCTGTTCTGTGGAGATCTAGGCAACGAAGTTAATGATGATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatccctttttatccaaaaggcttatttgtagcaaaa-cttgttcaacaatccaattattgttatgcaatacctattgtcaaattcttttaggggc
  | ||||| ||  | || ||||||||||| ||||| ||||| ||||| || || || || ||||| || |||||||| || |||||||||||||||||||||   |    |||  |   |         |      ||| | |  |  ||  || | |  |   | | |  || |  ||   | |  |    |||   | 
--ATGACTATCGCTTATTTTGTGGAGATCTGGGCAATGAAGTCAATGACGACGTCCTCTCAAAAGCTTTTTCACGGTTCCCCTCCTTCAACATGGCAAGGgtatggaaaagtttcgacatactctctacttccactccaagatcaaggacattaagctagctgggggttttgaaaatttacc-tgaggtagccttaactgt

upper sequence: GRMZM2G016106_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA20G36570.1 (Glycine max), 5'ss of exon 3
AGACGACTACCGGCTGTTCTGTGGAGATCTAGGCAACGAAGTTAATGATGATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaat--atccctttttatccaaaaggcttatttgtagcaaaacttgttcaacaatccaattattgttatgcaatacctattgt-caaattcttttaggggc
  | || || ||||| |||||||| ||||| || ||||| || |||||||||||||| || |||||||| ||||||||||| ||||| ||| ||||| | |||| |  || |||  |    |   ||   | ||| |    |    || |      | | | | |    ||    ||  |  ||| || ||| || |  |   
--ATGATTATCGGCTCTTCTGTGGGGATCTTGGTAACGAGGTGAATGATGATGTTCTCTCAAAAGCATTTTCACGGTTTCCTTCCTTTAACTTGGCACGAgtaagtggattcctcatctaactcgagttctctttatgtttagttatgattgttg-tgctagtgtgagcattttttatttcctgttcagatttttgtttga--

upper sequence: GRMZM2G016106_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA10G30900.2 (Glycine max), 5'ss of exon 3
AGACGACTACCGGCTGTTCTGTGGAGATCTAGGCAACGAAGTTAATGATGATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaata---tccctttttatccaaaaggcttatttgt--agcaaaacttgttcaacaatccaattattgttatgcaatacctattgtcaaattcttttaggggc
  | || || ||||| |||||||| ||||| || ||||| || |||||||||||||| || |||||||| ||||| ||||| ||||| ||||||||| | |||| |    || | | | |  | ||     ||| |||  ||  |   ||||    | |     | |   || |  | | ||| ||  || ||| || |  |   
--ATGATTATCGGCTCTTCTGTGGGGATCTTGGTAACGAGGTGAATGATGATGTTCTCTCAAAAGCATTTTCACGATTTCCTTCCTTTAACATGGCACGAgtaagtgggttctcatctaactcgaattctctatatgtttagttatgattgtcgtgctagt--gtgagcattttttatttcctgtt--cagatttttgtttgaa-

upper sequence: GRMZM2G016106_T02 (Zea mays), 5'ss of exon 1
lower sequence: AT3G04500.1 (Arabidopsis thaliana), 5'ss of exon 3
AGACGACTACCGGCTGTTCTGTGGAGATCTAGGCAACGAAGTTAATGATGATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaa----atatccctttttatccaaaaggcttatttgtagcaaaacttgttcaacaatccaattattgttatgcaatacctattgtcaaattcttttaggggc
  | ||||| || ||||||||||| ||||| || |||||||| |||||||||||||| |||||||||||  |  | || ||  ||||||| ||||| | |||||     |||  || |    |     |||||  | ||    |  | | |        | |   |    |||   | | |  | ||||  |  || |||    
--ATGACTATCGTCTGTTCTGTGGTGATCTTGGGAACGAAGTGAATGATGATGTTCTTTCCAAAGCATTTGCTAGATTCCCCACCTTCAATATGGCCAAGgtaactgtgtatatctctcctccttttcggctt--tagtgattattcatatctggtttcctatgaacatatatttgagaacattagtcatgtgattgtagtc--

upper sequence: GRMZM2G016106_T02 (Zea mays), 5'ss of exon 1
lower sequence: Vv09s0018g01710.t01 (Vitis vinifera), 5'ss of exon 3
AGACGACTACCGGCTGTTCTGTGGAGATCTAGGCAACGAAGTTAATGATGATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatccctttttatccaaa---aggcttatttgtagcaaaacttgttcaacaatccaattattgttatgcaatacctattgtcaaattcttttaggggc---
  | || || ||  | || ||||| ||||| ||||| || || || ||||||||||| || |||||||| ||||| ||||| |||||||| ||||| || |||| | |   |||   || |     |  ||| ||| ||  |  |    |  || |    |  ||||||| |||      ||||||    || ||  |    |   
--ATGATTATCGTTTATTTTGTGGTGATCTTGGCAATGAGGTGAACGATGATGTTCTTTCAAAAGCATTTTCACGATTTCCTTCCTTCAATATGGCCAGAgtaagtttatatttccctcaagttttatacttttttttattaggaac--tctaata--ttagatattgtt-tgcttggtgtattgttgt-tttttgcatatcctct

upper sequence: GRMZM2G016106_T02 (Zea mays), 5'ss of exon 1
lower sequence: Vv14s0036g00630.t01 (Vitis vinifera), 5'ss of exon 3
AGACGACTACCGGCTGTTCTGTGGAGATCTAGGCAACGAAGTTAATGATGATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatccctttttatccaaaaggcttatttgtagcaaaacttgttcaacaatccaattatt-gttatgcaatacctattgtcaaattcttttaggggc------
  | || || ||  | || ||||| ||||| ||||| || || |||||||||||||| || |||||||| ||||| ||||| |||||||| ||||| |  |||| | | |  ||| || |||     |||  | |       |||  | |  ||| | |||||| | |||    | | |  ||     |    ||   | |      
--ATGATTATCGTTTATTTTGTGGTGATCTTGGCAATGAGGTGAATGATGATGTTCTTTCAAAAGCATTTTCACGATTTCCTTCCTTCAATATGGCTAAAgtaagt-ttctatttcattcaagttctttacctttt------ctttattaggaattctattattagatatcatttgcttggtgcatggtgagctttttgcccattct

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|50322655|gb|CO517781.1|CO517781
EST:     GTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: GTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|71299286|gb|DR785657.1|DR785657
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|78081955|gb|DV510367.1|DV510367
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|78087827|gb|DV516220.1|DV516220
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|78025573|gb|DV493960.1|DV493960
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|71434198|gb|DR815248.1|DR815248
EST:     ATGTTCTATTCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|78081954|gb|DV510366.1|DV510366
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|60353708|gb|DN220681.1|DN220681
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|211288995|gb|FL439217.1|FL439217
EST:     TCTATCCAAAGCATTCTCACGG-TTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: TCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|71435061|gb|DR816111.1|DR816111
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|71307238|gb|DR789786.1|DR789786
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|16921229|gb|BM075048.1|BM075048
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|148954321|gb|EC899732.2|EC899732
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|71763841|gb|DR961778.1|DR961778
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|4967150|gb|AI691865.1|AI691865
EST:     ACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|71449598|gb|DR830648.1|DR830648
EST:     TGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTNCA-CATGGCAAGG                         GTTGTTAGAGATAAGAGGACT
genomic: TGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTT-CAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACT
EST: gi|5124136|gb|AI745760.1|AI745760
EST:     ATGTTCTATCCAAAGCTTTCTCNCGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
EST: gi|71763302|gb|DR961239.1|DR961239
EST:     ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGG                         GTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC
genomic: ATGTTCTATCCAAAGCATTCTCACGGTTTCCATCCTTCAACATGGCAAGGgtaaatatcc ... tttatttcagGTTGTTAGAGATAAGAGGACTGGCAAGACTAAAGGTTATGGATTTGTGAGC