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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCCTAGGCGACAGATCGCCCTTCACGCAGCAGAACTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgttttggtttcatcattaggctaaaatgctttcctttcccgggatcgcgcgtggtgctgaccatggcgtgtggttctgcag

Basic information

species Zea mays
transcript GRMZM2G075101_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G075101_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g64920.1 (Oryza sativa), 5'ss of exon 2
GCTCCTAGGCGACAGATCGCCCTTCACGCAGCAGAACTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt--ggtttcat-cattaggctaaaatgctttcctttcccgggatcgcgcgtggtgctgaccatggcgtgt----ggttctgcag
||||||||||||||||||||| |||||||||||||||||||| ||||||||||| ||||||||||||||||||| ||||||||||||||| |||||   ||||||  ||||   |||   |||| |  ||    ||      | | |||||||||  ||   ||     |  | |||||
GCTCCTAGGCGACAGATCGCCGTTCACGCAGCAGAACTGGCAGGGGGATAGCCTCGACCGCGACGAGGAGAACAGCAGGATCCAACgtaaggttttttagtttcaaacatttcactac--tgctgttgttcttgggatcaaagtgcggtgctgacattgaaatgctggggactgtgcag
















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|89756318|gb|DY686383.1|DY686383
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|211054460|gb|FL062166.1|FL062166
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|76020457|gb|DT947627.1|DT947627
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCCAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|211051518|gb|FL062160.1|FL062160
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|211054458|gb|FL062164.1|FL062164
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|211054455|gb|FL062161.1|FL062161
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|101396471|gb|EB820162.1|EB820162
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|211051516|gb|FL062158.1|FL062158
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|71330599|gb|DR802070.1|DR802070
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|211054459|gb|FL062165.1|FL062165
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGACGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|71426038|gb|DR807088.1|DR807088
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|31364177|gb|CD448532.1|CD448532
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|211051517|gb|FL062159.1|FL062159
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|71773509|gb|DR971409.1|DR971409
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|6636959|gb|AW261231.1|AW261231
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGTATTTTTCTTCTTCTTGGGCATCACACCTTCGGCGGACAC
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAG-A-TAGCCAACTTCTTGGGCATCACACCTTCGGCGGACAC
EST: gi|89762737|gb|DY690206.1|DY690206
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|71305474|gb|DR788868.1|DR788868
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|211054461|gb|FL062167.1|FL062167
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|71446825|gb|DR827875.1|DR827875
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
EST: gi|76015125|gb|DT942295.1|DT942295
EST:     CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAAC                         ACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG
genomic: CTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgtttt ... ggttctgcagACCTGGCGGAGATAGCCAACTTCTTGGGCATCACACCTTCGGCGGACACCG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCCTAGGCGACAGATCGCCCTTCACGCAGCAGAACTGGCAAGGGGATAGCCTGGACCGCGACGAGGAGAACAACAGGATCCAACgtaacgttttggtttcatcattaggctaaaatgctttcctttcccgggatcgcgcgtggtgctgaccatggcgtgtggttctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA