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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATAATGCTGGTCACAACGGTGAACTAGAGTCATATGTAGCTGCATTTTTTGAAAACTCACTATCACAAGCCAGGCAGATGGTTGACGAAGCCATCCAGgtatgttaaaacctagctggcaattactgaactctgcaacaggttgctcatagtttctttgatatattgcttatgtgttatatatag

Basic information

species Zea mays
transcript GRMZM2G468479_T01
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G468479_T01 (Zea mays), 5'ss of exon 15
lower sequence: LOC_Os01g09760.1 (Oryza sativa), 5'ss of exon 14
CAATAATGCTGGTCACAACGGTGAACTAGAGTCATATGTAGCTGCATTTTTTGAAAACTCACTATCACAAGCCAGGCAGATGGTTGACGAAGCCATCCAGgtatgttaaaacctagctgg-caattactgaactctgcaacaggttgctcatagtttctttgatatattgcttatgtgttatatatag
  | |    ||||||||| | ||| ||||| || ||| |  || | ||| |  |||  ||| |  ||||||||| |||||||||||||||||||||  ||||| ||||||   ||||||  ||||| |   |    | | |   ||   |||   |   |  |||| ||  ||   |||| |    ||
GCACAGGAATGGTCACAATGATGAGCTAGATTCTTATATTACTTCCTTTGTCCAAATGTCATTGGCACAAGCCAAGCAGATGGTTGACGAAGCCATGAAGgtaggttaaagtttagctgatcaattccctcaag--gtatctaattttgcatttctcactcaatatgttatttg-atgttttgc-cag
















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|67022661|gb|CO451410.1|CO451410
EST:     TTGAAAACTCACTATCACAAGCCAGGCAGATGGTTGACGAAGCCATCCAG                         GCAAACTCTGGTGGTAGTGATGATGAAAAGGTATGCATGTTAAATCAAGTG
genomic: TTGAAAACTCACTATCACAAGCCAGGCAGATGGTTGACGAAGCCATCCAGgtatgttaaa ... ttatatatagGCAAACTCTGGTGGTAGTGATGATGAAAAGGTATGCATGTTAAATCAAGTG
EST: gi|31910356|gb|CD651382.1|CD651382
EST:     AGATGGTTGACGAAGCCATCCAG                         GCAAACTCTGGTGGTAGTGATGATGAAAAGGTATGCATGTTAAATCAAGTG
genomic: AGATGGTTGACGAAGCCATCCAGgtatgttaaa ... ttatatatagGCAAACTCTGGTGGTAGTGATGATGAAAAGGTATGCATGTTAAATCAAGTG
EST: gi|31910358|gb|CD651383.1|CD651383
EST:     NNGAAAACTCACTATCACAAGCCAGGCAGATGGTTGACGAAGCCATCCAG                         GCAAACTCTGGTGGTAGTGATGATGAAAAGGTATGCATGTTAAATCAAGTG
genomic: T-GAAAACTCACTATCACAAGCCAGGCAGATGGTTGACGAAGCCATCCAGgtatgttaaa ... ttatatatagGCAAACTCTGGTGGTAGTGATGATGAAAAGGTATGCATGTTAAATCAAGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAATAATGCTGGTCACAACGGTGAACTAGAGTCATATGTAGCTGCATTTTTTGAAAACTCACTATCACAAGCCAGGCAGATGGTTGACGAAGCCATCCAGgtatgttaaaacctagctggcaattactgaactctgcaacaggttgctcatagtttctttgatatattgcttatgtgttatatatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG