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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGCCTGTATGCACCCTTTCTTCGATGAGCTGAGAGACCCAAACACTCGTCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataattgtactgagacatcagtgttgctattctgtcagtaaatcttctgttaccttaacatgggcatacttgagaatttaacctagctagtttcaaattggattctcagctaaaactgatcagatgtttgcaatactgacag

Basic information

species Zea mays
transcript GRMZM2G138676_T04
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G138676_T05 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os03g62500.1 (Oryza sativa), 5'ss of exon 12
GAGGCCTGTATGCACCCTTTCTTCGATGAGCTGAGAGACCCAAACACTCGTCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataattgtactgagacatcagtgttgctattctgtcagtaaatcttctgttaccttaacatgggcatacttgagaatttaacctagctagtttcaaattggattctcagctaaaactgatcagatgtttgcaatactgacag
|| ||||| |||||||||||||| |||||| ||||||| ||||||||||||||||| ||||| || ||||| || |||||||||||||||||| | ||||||| ||||  || | ||| ||| |  |      ||     |  ||   | | || |   || |         || | |  |||   ||||  |   |     | |                                          
GAAGCCTGCATGCACCCTTTCTTTGATGAGTTGAGAGATCCAAACACTCGTCTACCTAATGGGCGTCCTCTTCCTCCTCTCTTCAACTTCAGAACACAAGgtatcatagctgaa-tgaaacagcgataacagcatatgaaccttag--catttgctgatttgattctcatcaacctaaacatt---cctaaatctctctgcctcgt-----------------------------------------

upper sequence: GRMZM2G138676_T05 (Zea mays), 5'ss of exon 11
lower sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 13
GAGGCCTGTATGCACCCTTTCTTCGATGAGCTGAGAGACCCAAACACTCGTCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataattgtactgagacatcagtgttgctattctgtcagtaaatcttctgttaccttaacatgggcatacttgagaatttaacctagctagtttcaaattggattctcagctaaaactgatcagatgtttgcaatactgacag
|| || ||||| ||||||||||| |||||||| |||||||||||  ||||||| || || || ||||| || || || || ||||| || | | | |||||||        || |||  |  |   | ||  | ||       |||||  | | | |    |  |      ||  ||  |  || |   |||  || ||  |  |                                          
GAAGCTTGTATCCACCCTTTCTTTGATGAGCTAAGAGACCCAAATGCTCGTCTGCCAAACGGCCGGCCACTTCCTCCGCTATTCAATTTTAAACCACAAGgtaag------gttctgttatttgcttcttcttttttccgtgttaaattctttataagggaagaaaattagtatgtgtta--ttgata-agcgtgtgtcctacag------------------------------------------

upper sequence: GRMZM2G138676_T05 (Zea mays), 5'ss of exon 11
lower sequence: AT1G09840.1 (Arabidopsis thaliana), 5'ss of exon 12
GAGGCCTGTATGCACCCTTTCTTCGATGAGCTGAGAGACCCAAACACTCGTCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataattgtactgagacatcagtgttgctattctgtcagtaaatcttctgt-taccttaacatgggcatacttgagaatttaacctagctagtttcaaattggattctcagctaaaactgatcagatgtttgcaatactgacag
|| || ||||| || || || || |||||||| || ||||||||||||||||| |||||||| || || || || || || |||||||| | | | |||||||   |     || |      |   |||||     || | |  | ||||    | |    ||   |  |   | |||   |  |          |||    |||||                                         
GAAGCTTGTATCCATCCGTTATTTGATGAGCTAAGGGACCCAAACACTCGTCTTCCCAATGGCCGACCACTTCCTCCACTTTTCAACTTTAAACCGCAAGgtacagttcccttattt-----ttcttgttg--ggcctattaagagatctaacatatgtagtatgctccgttaagttgttgacatgttgcgttgtgttcatgattgg-----------------------------------------

upper sequence: GRMZM2G138676_T05 (Zea mays), 5'ss of exon 11
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 5'ss of exon 11
GAGGCCTGTATGCACCCTTTCTTCGATGAGCTGAGAGACCCAAACACTCGTCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataattgtactgagacatcagtgttgctattctgtcagtaaatcttctgtta-ccttaacatgggcatacttgagaatttaacctagctagtttcaaattggattctcagctaaaactgatcagatgtttgcaatactgacag
|| || || || ||||||||||| |||||| |||| ||||| | ||||||||| || ||||| || ||||| || || ||||| || |||| | |||||||||   |   | |  |  |  |||    ||       | | || ||   |  | ||  |||| |  ||   ||  ||   |    ||  |||  | |||   |                                             
GAAGCTTGCATCCACCCTTTCTTTGATGAGTTGAGGGACCCTAGCACTCGTCTTCCTAATGGCCGTCCTCTTCCTCCCCTCTTTAATTTCAAACCTCAAGgtaagtttgatctgatctg-tatccaccttatctacttttgaggaacaataatattgtcctttaggtgatgatgattttcag--aaatttagtaattttatga---------------------------------------------

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|78024451|gb|DV492838.1|DV492838
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
EST: gi|29947291|gb|CB816579.1|CB816579
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
EST: gi|6021801|gb|AW066729.1|AW066729
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
EST: gi|76292959|gb|DV032527.1|DV032527
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
EST: gi|31355062|gb|CD439419.1|CD439419
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
EST: gi|38229772|gb|CF920085.1|CF920085
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGNGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCA
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCA
EST: gi|71322556|gb|DR797955.1|DR797955
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
EST: gi|71312506|gb|DR792786.1|DR792786
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
EST: gi|32834795|gb|CD974473.1|CD974473
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
EST: gi|32832205|gb|CD971883.1|CD971883
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
EST: gi|32928721|gb|CF033533.1|CF033533
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
EST: gi|76292960|gb|DV032528.1|DV032528
EST:     TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAG                         AGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT
genomic: TCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataat ... atactgacagAGCTAAAAGGCGTTCCCCCAGAAGTCATCGATCGCCTTGTCCCAGAGCACT