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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgccacacactatcttatcccccatcttcctgcgcgcgacccataaccaatcccaagtagacgctgcgcattgtgtcagcctgccatggcttgacattgatagcgtcgtcttctgatgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCATCATGCGCCAGATCGCGTCTTGCATCACCTACCTCCCCTGCCTCGACGAG

Basic information

species Zea mays
transcript GRMZM2G047143_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G047143_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT3G25980.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgcgccacacactatcttatcccccatcttcctgcgcgcgacccataaccaatcccaagtagacgctgcgcattgtgtcagcctgccatggcttgacattgatagcgtcgtcttctgatgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCATCATGCGCCAGATCGCGTCTTGCATCACCTACCTCCCCTGCCTCGACGAG
                         ||  ||  ||            |  |  || |||||      ||    || | |  |  |  | | | || |   || || |      || ||    |  | || |     | ||||||||| || |||||||||||||||||||| || || || ||| | ||| | || ||  |  | || ||| | || || || || || 
-----------------------gtcagttttttgtttttagtgttgatactttcgcaagt-----ttgtttgttttctttgatt--ctttgtttcattatgttatc-----tttatggaactttttagTGTGTCGAGGGAGAAGAGTGATAAGGAGATCATGAGGGAGATTCAAGCTATTATGAGACAGGTTGCTTCAAGTGTTACTTACTTGCCTTGTCTTGATGAA
















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|31406271|gb|CD485003.1|CD485003
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|76019513|gb|DT946683.1|DT946683
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|87155980|gb|DY400769.1|DY400769
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGATAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|31441067|gb|CD510498.1|CD510498
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|34391357|gb|CF384585.1|CF384585
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|78078551|gb|DV506963.1|DV506963
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|60349178|gb|DN216151.1|DN216151
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|101396571|gb|EB820211.1|EB820211
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|5713718|gb|AI943710.1|AI943710
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGATAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|94475186|gb|EB704144.1|EB704144
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|101396573|gb|EB820212.1|EB820212
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|78023687|gb|DV492074.1|DV492074
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGATAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|211437588|gb|FL436643.1|FL436643
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGATAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|12969132|gb|BG266077.1|BG266077
EST:     CGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGATAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: CGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|4966592|gb|AI691448.1|AI691448
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGATAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|148946894|gb|EC892174.2|EC892174
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT
EST: gi|32912163|gb|CF016975.1|CF016975
EST:     GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGG                         GGCCATCAAGGAGAAGAGCGATAAGGAGATCATGAGGGAGATCCAGGCCAT
genomic: GAGCGCTGGAACTTCAACATCGTCACCGACGCCGAGGTCGTCGAGAAGGGgtgcgccaca ... tgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgtcagcctgccatggcttgacattgatagcgtcgtcttctgatgttcgtcagGGCCATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCATCATGCGCCAGATCGCGTCTTGCATCACCTACCTCCCCTGCCTCGACGAG
                                       ttctgat  putative branch site (score: 3)
                        attgata  TA-rich tract