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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAGGCGCCGGCGTCAGCATCGGCCGGCACGGGGACAGGGGGTACCCGGACCTGCAGCAGGCGCCCATGGCGGCTCCGCGCGTCGAGAAGCTCTCAGCAGgtgcgcgacgtgctccgcgctgagctacgtgttccacggtttggggtgggtgggtggactggatcccggcaaggtggttgatctcccgcgtggtggttca...

Basic information

species Zea mays
transcript GRMZM2G140095_T03
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G140095_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g30900.1 (Oryza sativa), 5'ss of exon 1
ACAGGCGCCGGCGTCAGCATCGGCCGGCACGGGGACAGGGGGTACCCGGACCTGCAGCA---GGCGCCCATGGCGGCTCCGCGCGTCGAGAAGCTCTCAGCAGgtgcgcgacgtgctccgcgctgagctacgtgttccac-ggtttggggtgggtgggtggactggatcccggcaaggtggttgatc--tcccgcgt-ggtggttca-
   |||   || |  ||   |||  |  ||  ||||  |    |||   ||| ||||||   |  ||||||||| || |||||||||||||||||||| |||||||||     | |||| | | |   | || |||     |  ||||||||| |    || | |   |   |   |||||  ||||    |||||| || ||  || 
--CGGCATGGG-GAGAGGGGCGGTGGTTACCCGGACCTGCACCACCACCACCAGCAGCAGCAGCTGCCCATGGCAGCGCCGCGCGTCGAGAAGCTCTCCGCAGgtgcgtccgttactcc-ctccg---ttcgcgttgggttgagttggggtggatctccgggcggcggcggcggttggtggg-gatcggatccgcgtcggggggacac
















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|33467858|gb|CF244907.1|CF244907
EST:     CCTGCAGCAGGCGCCCATGGCGGCTCCGCGCGTCGAGAAGCTCTCAGCAG                         CGGCTGAGAAAGCAAGAGTAAAGAGCAATGGGCTCACCAAAGAGGCTTTGG
genomic: CCTGCAGCAGGCGCCCATGGCGGCTCCGCGCGTCGAGAAGCTCTCAGCAGgtgcgcgacg ... atgtgtgcagCGGCTGAGAAAGCAAGAGTAAAGAGCAATGGGCTCACCAAAGAGGCTTTGG
EST: gi|37420894|gb|CF648144.1|CF648144
EST:     CCTGCAGCAGGCGCCCATGGCGGCTCCGCGCGTCGAGAAGCTCTCAGCAG                         CGGCTGAGAAAGCAAGAGTAAAGAGCAATGGGCTCACCAA
genomic: CCTGCAGCAGGCGCCCATGGCGGCTCCGCGCGTCGAGAAGCTCTCAGCAGgtgcgcgacg ... atgtgtgcagCGGCTGAGAAAGCAAGAGTAAAGAGCAATGGGCTCACCAA
EST: gi|76283559|gb|DV023127.1|DV023127
EST:     CCTGCAGCAGGCGCCCATGGCGGCTCCGCGCGTCGAGAAGCTCTCAGCAG                         CGGCTGAGAAAGCAAGAGTAAAGAGCAATGGGCTCACCAAAGAGGCTTTGG
genomic: CCTGCAGCAGGCGCCCATGGCGGCTCCGCGCGTCGAGAAGCTCTCAGCAGgtgcgcgacg ... atgtgtgcagCGGCTGAGAAAGCAAGAGTAAAGAGCAATGGGCTCACCAAAGAGGCTTTGG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAGGCGCCGGCGTCAGCATCGGCCGGCACGGGGACAGGGGGTACCCGGACCTGCAGCAGGCGCCCATGGCGGCTCCGCGCGTCGAGAAGCTCTCAGCAGgtgcgcgacgtgctccgcgctgagctacgtgttccacggtttggggtgggtgggtggactggatcccggcaaggtggttgatctcccgcgtggtggttca

- - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC