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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGTGTACTCCGTAGGATGCCGGATGGTGGCGAGAAGATGCATTCACGTGTCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaatgtggacttcgcgtaatagcttcgggtttgctttagtgtttctccctttctgttttgggcttggttgatatcaggcccacggacagttga...

Basic information

species Zea mays
transcript GRMZM5G886883_T03
intron # 1
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|71305066|gb|DR788670.1|DR788670
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|78109684|gb|DV528100.1|DV528100
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|148947131|gb|EC892444.2|EC892444
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|93014964|gb|EB640484.1|EB640484
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|149000423|gb|EE037594.2|EE037594
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|148992844|gb|EE033671.2|EE033671
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|89251283|gb|DY623069.1|DY623069
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|148982611|gb|EE028409.2|EE028409
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|149088271|gb|EE177365.2|EE177365
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|148996312|gb|EE035595.2|EE035595
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|149000477|gb|EE037653.2|EE037653
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|67031282|gb|CO460031.1|CO460031
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|71767172|gb|DR965109.1|DR965109
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|60339883|gb|DN206856.1|DN206856
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
EST: gi|149078105|gb|EE166854.2|EE166854
EST:     TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATG                         GATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC
genomic: TCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaa ... attatgttagGATGTCACGCCCTTGAGACAGACAGTGCAAGCTAAGCGTACTGGTGGCAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGTGTACTCCGTAGGATGCCGGATGGTGGCGAGAAGATGCATTCACGTGTCCTCCGGATGAAGAAGGAGCTCGAGCGGCGGAGGGCCAGACAGAGGATGgtgaggaaaatgtggacttcgcgtaatagcttcgggtttgctttagtgtttctccctttctgttttgggcttggttgatatcaggcccacggacagttga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG