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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaatctgaaatcactttttttttggtacctgtgatgcttcctagcttgtatttgtaatctgtattgtcctaaagcatgtttcgttttcgttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTAACTCACGTCAATCTCAACGACAATAGTTGTGCTGGCCTTCAGTACGCCA

Basic information

species Zea mays
transcript GRMZM2G147450_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147450_T03 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os02g47850.1 (Oryza sativa), 3'ss of exon 10
agaatctgaaatcactttttttttggtacctgtgatgcttccta-gcttgtatttgtaatctgtattgtcctaaagcatgtttcgttttcgttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTAACTCACGTCAATCTCAACGACAATAGTTGTGCTGGCCTTCAGTACGCCA
| | |    | ||     | ||||      |||  | |||   |  |||| ||||   | ||||    ||   ||   | || |  | |  |||  || |||||||||| || || ||||||||||| |||||||||||||| |   ||||||| ||  ||||||||||||| ||||| ||||| |||||||||||| | |
atatttctgagtcttagctattttcccctttgttttacttgtcatacttgcatttacta-ctgtgcaatctgcaattgtcttaccgtatttttctctgcagAACCATAATTATGCTGTTGACCCAGAGTCACTTCCAGAAGGGGTGAAAGTAACACATATCAATCTCAACGATAATAGCTGTGCCGGCCTTCAGTACCCTA
















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|22552626|gb|BU102465.1|BU102465
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|21626214|gb|BQ621135.1|BQ621135
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|148969715|gb|EE020587.2|EE020587
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|6021531|gb|AW066459.1|AW066459
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|211486296|gb|FL444470.1|FL444470
EST:     TGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: TGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|20301382|gb|BQ164325.1|BQ164325
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|37392466|gb|CF633484.1|CF633484
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|20802593|gb|BQ293643.1|BQ293643
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|148934461|gb|EC878500.2|EC878500
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|45846984|gb|CN070927.1|CN070927
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATTAGTGCACAG                         AGCCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|20208474|gb|BQ134563.1|BQ134563
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCCCAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|5670854|gb|AI932117.1|AI932117
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|211122171|gb|FL463027.1|FL463027
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGTAGAAGTH
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|21760053|gb|BQ635594.1|BQ635594
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|149102853|gb|EE288195.2|EE288195
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|21759841|gb|BQ635382.1|BQ635382
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|74245055|gb|DT652969.1|DT652969
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
EST: gi|78544147|gb|DV621645.1|DV621645
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGGCGTGTAGACATAAGTGCACAGgtttgttcct ... ttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtatttgtaatctgtattgtcctaaagcatgtttcgttttcgttccatgtagAACCATAACTACGCAGTTGACCCAGAATCACTTCCAGAAGGAGCAGAAGTAACTCACGTCAATCTCAACGACAATAGTTGTGCTGGCCTTCAGTACGCCA
                      tcctaaa  putative branch site (score: 2)
                                  tttcgttttcgttcc  putative PPT
     atttgtaat  TA-rich tract