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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGCGTCCAGGACAACATCCTCATCACGCTCAGCAAGCCCAGGTGGCTCATCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgacatctactttcttcattaattactatttacagttcctgcaaaaactaaatcttttcgatgcag

Basic information

species Zea mays
transcript GRMZM2G046743_T01
intron # 3
splice site 5'
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|148931492|gb|EC874511.2|EC874511
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACAT
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACAT
EST: gi|78092654|gb|DV521028.1|DV521028
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|71761350|gb|DR959287.1|DR959287
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|149000252|gb|EE037405.2|EE037405
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|71446658|gb|DR827708.1|DR827708
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|37385478|gb|CF629883.1|CF629883
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCATGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGATATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|50336113|gb|CO531239.1|CO531239
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
EST: gi|40334334|gb|CK368404.1|CK368404
EST:     TCGCGCTCGCCAACATGATGGTCGTCATCCATGTCATTGGCAGCTACCAG                         ATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG
genomic: TCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgaca ... ttcgatgcagATCTACGCCATGCCAGTGTTTGACATGATAGAGACGGTGCTGGTGAAGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGCGTCCAGGACAACATCCTCATCACGCTCAGCAAGCCCAGGTGGCTCATCGCGCTCGCCAACATGATGGTCGTCATCCACGTCATTGGCAGCTACCAGgtacgcgacatctactttcttcattaattactatttacagttcctgcaaaaactaaatcttttcgatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT