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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGATTAGTGGTGTCACATGTGATGCTCCATATGAATGGTCGGACAAGACTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattgactattgacactctttcccacacccaaaataaatattgtacctgatatgagcttcatttcttctgtag

Basic information

species Zea mays
transcript GRMZM2G029573_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G029573_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 8
TTTGATTAGTGGTGTCACATGTGATGCTCCATATGAATGGTCGGACAAGACTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattgactattgacactctttccc-------acacccaaaataaatattgtacctga-tatgagcttcatttcttctgtag
||||||||||||||||||||| |||||||||||||||||||| ||||||||||||||||| ||||| || |||| || ||  || | ||||| ||||||||||||| |||  | | | | || | ||         ||||   | || ||| |  || || |  || |||||| |||  | |    
TTTGATTAGTGGTGTCACATGCGATGCTCCATATGAATGGTCAGACAAGACTGATTCAGAGTGGGAATTCAAGAAGGGTCAATCGACTGAAAGTTTTCATgtcagtgttggtt-tggtccctttctcttttttgaaacacttcagatgaatctcatatctaaacattagcttccttttatttag--
















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|6445511|gb|AW179429.1|AW179429
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|211289805|gb|FL254555.1|FL254555
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|31355937|gb|CD440294.1|CD440294
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|148969434|gb|EE020234.2|EE020234
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|67018136|gb|CO446885.1|CO446885
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|71764310|gb|DR962247.1|DR962247
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|37401297|gb|CF638011.1|CF638011
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|211287673|gb|FL254551.1|FL254551
EST:     TGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: TGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTG-AAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|211287671|gb|FL254549.1|FL254549
EST:     CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
genomic: CTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACA
EST: gi|31356811|gb|CD441168.1|CD441168
EST:     TGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTG-AACTTTTTCAT                         GTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGAC
genomic: TGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAAC-TTTTCATgtcagtattg ... tcttctgtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTGATTAGTGGTGTCACATGTGATGCTCCATATGAATGGTCGGACAAGACTGATTCAGAATGGGAGTTTAAGAGGGATCCGTCAAGTGAAACTTTTCATgtcagtattgactattgacactctttcccacacccaaaataaatattgtacctgatatgagcttcatttcttctgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG