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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCGCCGGAGAGGCGGATCTCGGCAGGGCAGGAGGGGGCGCCGAAGCACGTCTACGTGTTCCAGCGGGAGTACGCCACGGTGGATCCGGCGCGCGTCGAGgtgcgtggagttgccttgtcgcggcttggtctaatagggttggggaatttcgttccccacctgcctttgggtgataaaaacgggatcttgttacgtcgtt...

Basic information

species Zea mays
transcript GRMZM2G144362_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G144362_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os06g41390.4 (Oryza sativa), 5'ss of exon 2
CGCGCCGGAG-AGGCGGATCTCGGCAGGGCAG--GAGGGGGCGCCGAAGCACGTCTACGTGTTCCAGCGGGAGTACGCCACGGTGGATCCGGCGCGCGTCGAGgtgcgtg-gagttgccttg--tcgcggcttggtctaatagggttggggaatttcgttccccacctgcctttgggtgataaaaacgggatcttgttacg-tcgtt
   ||| ||| |||  |||   | |   || |  | || |||||||| |||||| ||||||||||||||||||| ||||||||| ||||||||||||||||||||||||| | | ||||  |  |  |  || | | || |||| |  ||     |||         ||  |  | ||  || | | |||     |   |  ||   
---GCCAGAGGAGGATGATGCGGACGCCGCGGCGGCGGCGGCGCCGAGGCACGTGTACGTGTTCCAGCGGGAGTTCGCCACGGTTGATCCGGCGCGCGTCGAGgtgcgtgcgtgatgcccgggatttcacctcgctgtagtaggttcagg---cctcgcggtttgattgggta-gtgtcgtagagatggggggggggggcactcagc
















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|32798502|gb|CD950738.1|CD950738
EST:     GATCCGGCGCGCGTCGAG                         TTAGTGGGCACGGATGAGGCTACTACATGCATTGGTGCTGTAATTCGCAAC
genomic: GATCCGGCGCGCGTCGAGgtgcgtggag ... tgcgttatagTTAGTTGGCACAGATGAGGCTACTACATGCATTGGTGTTGTAATTCGCAAC
EST: gi|86468333|gb|DY234703.1|DY234703
EST:     TCTACGTGTTCCAGCGGGAGTACGCCACGGTGGATCCGGCGCGCGTCGAG                         TTAGTTGGCACAGAAGAGGCTACTACATGCATTGGTGTTGTAATTCGCAAC
genomic: TCTACGTGTTCCAGCGGGAGTACGCCACGGTGGATCCGGCGCGCGTCGAGgtgcgtggag ... tgcgttatagTTAGTTGGCACAGATGAGGCTACTACATGCATTGGTGTTGTAATTCGCAAC
EST: gi|93281088|gb|EB673352.1|EB673352
EST:     TCTACGTGTTCCAGCGGGAGTACGCCACGGTGGATCCGGCGCGCGTCGAG                         TTAGTTGGCACAGATGAGGCTACTACATGCATTGGTGTTGTAATTCGCAAC
genomic: TCTACGTGTTCCAGCGGGAGTACGCCACGGTGGATCCGGCGCGCGTCGAGgtgcgtggag ... tgcgttatagTTAGTTGGCACAGATGAGGCTACTACATGCATTGGTGTTGTAATTCGCAAC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCGCCGGAGAGGCGGATCTCGGCAGGGCAGGAGGGGGCGCCGAAGCACGTCTACGTGTTCCAGCGGGAGTACGCCACGGTGGATCCGGCGCGCGTCGAGgtgcgtggagttgccttgtcgcggcttggtctaatagggttggggaatttcgttccccacctgcctttgggtgataaaaacgggatcttgttacgtcgtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA