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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgtggttaaaaataccgaccacgtgcgtacagggagggtcttattatacccaaatccgatccgtggtgtgtgtagtgtacccagGAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAGCTGCGGCGGCGGGTACGTGAAGGTGAAGCTGGAAGGGGTGCCCATCGGG

Basic information

species Zea mays
transcript GRMZM2G000158_T01
intron # 1
splice site 3'
intron type U2

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|22490343|gb|BU050266.1|BU050266
EST:     GGCG---GCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         GAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccagGAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
EST: gi|18964862|gb|BM661253.1|BM661253
EST:     GGCG---GCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         GAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccagGAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
EST: gi|18963969|gb|BM660732.1|BM660732
EST:     GGCG---GCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         GAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccagGAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
EST: gi|87151978|gb|DY396767.1|DY396767
EST:     GGCG---GCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         GAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccagGAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
EST: gi|74234745|gb|DT642659.1|DT642659
EST:     GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         GAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccagGAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
EST: gi|211042584|gb|FL403358.1|FL403358
EST:     GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         GAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccagGAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
EST: gi|71448007|gb|DR829057.1|DR829057
EST:     GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         T
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccag-
EST: gi|71448007|gb|DR829057.1|DR829057
EST:     GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         T
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccag-
EST: gi|87151801|gb|DY396590.1|DY396590
EST:     GGCG---GCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         GAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccagGAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
EST: gi|78081855|gb|DV510267.1|DV510267
EST:     GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         T
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccag-
EST: gi|78081855|gb|DV510267.1|DV510267
EST:     GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         T
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccag-
EST: gi|211108800|gb|FL115287.1|FL115287
EST:     GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         T
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccag-
EST: gi|211108800|gb|FL115287.1|FL115287
EST:     GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         T
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccag-
EST: gi|211119373|gb|FL414335.1|FL414335
EST:     GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAA                         GAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG
genomic: GGCGACCGCGACCGCGACGGCGTCGTCGACCATGAACAGCAAAGCAACAAgtgagttgtg ... gtgtacccagGAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagggagggtcttattatacccaaatccgatccgtggtgtgtgtagtgtacccagGAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAGCTGCGGCGGCGGGTACGTGAAGGTGAAGCTGGAAGGGGTGCCCATCGGG
         tcttattata  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttgtggttaaaaataccgaccacgtgcgtacagggagggtcttattatacccaaatccgatccgtggtgtgtgtagtgtacccagGAAGAAGAGGCTGGTGGGGTGGCCGCCGGTGAAGTGCGCGCGTAGGCGTAGCTGCGGCGGCGGGTACGTGAAGGTGAAGCTGGAAGGGGTGCCCATCGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG