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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaggcctcatccttgctacacttagtaatttcatgctatgtttgcagtgggcttgtagtggaacagaattctacatactgtggtagttgtttcattttcagaccttatctgccttacggatcatcttatttctctgctctgaaactgtcaaaattcaaataattgtagaccttatcatattttctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGTTCATATTTCTCGTGGCTTGGTTATTCTGAAGGGTAAAACTTGCACAAGG

Basic information

species Zea mays
transcript GRMZM2G178822_T03
intron # 3
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|211443458|gb|FL042456.1|FL042456
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|211443465|gb|FL042463.1|FL042463
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|211443464|gb|FL042462.1|FL042462
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|211441336|gb|FL042450.1|FL042450
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|211443461|gb|FL042459.1|FL042459
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|211443466|gb|FL042464.1|FL042464
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|211443459|gb|FL042457.1|FL042457
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|211443460|gb|FL042458.1|FL042458
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|211443457|gb|FL042455.1|FL042455
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|211441339|gb|FL042453.1|FL042453
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGNACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|71328344|gb|DR800801.1|DR800801
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|149089320|gb|EE178543.2|EE178543
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
EST: gi|211443463|gb|FL042461.1|FL042461
EST:     CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAG                         GCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT
genomic: CATCTGTTGCTGCCCTAATTAGTTGATTTGTCTTCTGTGTACTATCTGAGgtcaggcctc ... ctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgaaactgtcaaaattcaaataattgtagaccttatcatattttctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGTTCATATTTCTCGTGGCTTGGTTATTCTGAAGGGTAAAACTTGCACAAGG
                                           ttctaat  putative branch site (score: 2)
                                       tattttct  CT-rich tract
           aaaattcaaataattg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcaggcctcatccttgctacacttagtaatttcatgctatgtttgcagtgggcttgtagtggaacagaattctacatactgtggtagttgtttcattttcagaccttatctgccttacggatcatcttatttctctgctctgaaactgtcaaaattcaaataattgtagaccttatcatattttctaattgcagGCAAGATATTGATCAGCTAGAACTTGGCAAACCCTTGCCTTTCGTGTCTGTTCATATTTCTCGTGGCTTGGTTATTCTGAAGGGTAAAACTTGCACAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG