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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcatgttatattgactctcaaaattgccttgcaaatcataggtctcatgcttgaatgggagttgtgacacatttaatttcatgtgctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTTGAAGCATTTAGTGAAAATATTGGATCAGGCTGAAGCTAAGCGAAGCATT

Basic information

species Zea mays
transcript GRMZM2G133749_T01
intron # 12
splice site 3'
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|71758651|gb|DR956588.1|DR956588
EST:     CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAG                         GTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
genomic: CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAGgtgcatgtta ... gctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
EST: gi|78110506|gb|DV528916.1|DV528916
EST:     CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAG                         GTGATGAGAACAGCTGCTCTGTCTGGATGNNNNNNNCCTCACAAGAAGCTT
genomic: CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAGgtgcatgtta ... gctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
EST: gi|78120249|gb|DV538633.1|DV538633
EST:     CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAG                         GTGATGAGAACAGCTGCTCTGTCTGGATGNNNNNNNCCTCCCAAGAAGCTT
genomic: CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAGgtgcatgtta ... gctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
EST: gi|60355334|gb|DN222307.1|DN222307
EST:     CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAG                         GTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
genomic: CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAGgtgcatgtta ... gctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
EST: gi|76287081|gb|DV026649.1|DV026649
EST:     CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAG                         GTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
genomic: CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAGgtgcatgtta ... gctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
EST: gi|5932732|gb|AW057093.1|AW057093
EST:     CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAG                         GTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
genomic: CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAGgtgcatgtta ... gctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
EST: gi|31664125|gb|CD573305.1|CD573305
EST:     CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAG                         GTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
genomic: CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAGgtgcatgtta ... gctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
EST: gi|213186763|gb|FM190552.1|FM190552
EST:     CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAG                         GTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
genomic: CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAGgtgcatgtta ... gctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
EST: gi|60349571|gb|DN216544.1|DN216544
EST:     CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAG                         GTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
genomic: CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAGgtgcatgtta ... gctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT
EST: gi|93283432|gb|EB675696.1|EB675696
EST:     CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAG                         GTGATGAGAACAGCTGCTCTGTCTGGATGNNNNNNNCCTCACAAGAAGCTT
genomic: CAGAAGATTTGGCATGCAAGATGAGTTTGAAGACGAGTTAAACTTGGCAGgtgcatgtta ... gctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtctcatgcttgaatgggagttgtgacacatttaatttcatgtgctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTTGAAGCATTTAGTGAAAATATTGGATCAGGCTGAAGCTAAGCGAAGCATT
                               atttaat  putative branch site (score: 4)
                                              ctctatt  putative PPT
                             acatttaatttcat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcatgttatattgactctcaaaattgccttgcaaatcataggtctcatgcttgaatgggagttgtgacacatttaatttcatgtgctctattagGTGATGAGAACAGCTGCTCTGTCTGGATGTTTTCTTCCTCACAAGAAGCTTGAAGCATTTAGTGAAAATATTGGATCAGGCTGAAGCTAAGCGAAGCATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC