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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgataaatactgacttgtcccaaggtgtggtcgcttgaaaagtatcttattatcatcaatcgtgtgggctgttagaagtcatgttatttgtgatg...

Basic information

species Zea mays
transcript GRMZM2G337425_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G337425_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os03g16570.2 (Oryza sativa), 5'ss of exon 7
TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgataaatactgacttg--tcccaaggtgtggtcgcttgaaaagtatcttattatcatcaatcgtgtgggctgttagaagtcatgttatttgtgatg
|||||| |||||||| | ||| |||||||| ||||  || ||||||||||||||  |||||||||||| ||  |   |||  ||  |   |||||  | |||| | | | ||   | |  | |||   | ||  || ||  ||   | |  
TGATGGACCATCTCAACCATCTGTTTCTTCTACTGAATCTGGCAATGAGgtaataaataaatactgacatgattatgaagaggttattctttgaatggcatct-actgttattgtttgcataggcatgttgacatcctggcatgactaag-
















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|78109926|gb|DV528341.1|DV528341
EST:     TGATGGGCCATCTCAGCTATCGGGTTCTTCAACTGGGGTC-GGCAATGAG                         GAAAAGCAGGATGGTTTAAAAGCAGATGGAA
genomic: TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGG-TCCGGCAATGAGgtaattgata ... tgccttgcagGAAAAGCAGGATGGTTTAAAAGCAGATGGAA
EST: gi|148928861|gb|EC873779.2|EC873779
EST:     TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG                         GAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
genomic: TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgata ... tgccttgcagGAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
EST: gi|78083979|gb|DV512372.1|DV512372
EST:     TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG                         GAAAAGCAGGATGTTTTAAA-GCAGATGGAACCAGCAAACCTTCAGAGGAT
genomic: TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgata ... tgccttgcagGAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
EST: gi|18164717|gb|BM334556.1|BM334556
EST:     TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG                         GAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
genomic: TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgata ... tgccttgcagGAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
EST: gi|91048354|gb|EB158772.1|EB158772
EST:     TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCCGGCA-TGAG                         GAAAAGCAGGATGGTTTAAAAGCAGATGGAACCCAGCAA-CCTTCAGAAG
genomic: TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCC-GGCAATGAGgtaattgata ... tgccttgcagGAAAAGCAGGATGGTTTAAAAGCAGATGGAACC-AGCAAACCTTCAGAGG
EST: gi|71760470|gb|DR958407.1|DR958407
EST:     TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG                         GAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
genomic: TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgata ... tgccttgcagGAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
EST: gi|78083978|gb|DV512371.1|DV512371
EST:     TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG                         GAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
genomic: TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgata ... tgccttgcagGAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
EST: gi|18166650|gb|BM336489.1|BM336489
EST:     TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG                         GAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
genomic: TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgata ... tgccttgcagGAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
EST: gi|78085072|gb|DV513465.1|DV513465
EST:     TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG                         GAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
genomic: TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgata ... tgccttgcagGAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
EST: gi|76288197|gb|DV027765.1|DV027765
EST:     TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG                         GAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
genomic: TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgata ... tgccttgcagGAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
EST: gi|86467324|gb|DY233694.1|DY233694
EST:     TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG                         GAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT
genomic: TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgata ... tgccttgcagGAAAAGCAGGATGGTTTAAAAGCAGATGGAACCAGCAAACCTTCAGAGGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAGgtaattgataaatactgacttgtcccaaggtgtggtcgcttgaaaagtatcttattatcatcaatcgtgtgggctgttagaagtcatgttatttgtgatg

- - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaagta