Sequence
atgc intronic sequence ATGC exonic sequencegtatatatatacgcatggctgctgacatttgtcttgctgagtctgctaccatagctgatgcatggctgactgctttgctttctgaactgtgtgcagCTGACAAACCCGAACCTGCCGTTCGGAGGAGTCGGGGAGAGCGGCATGGGCGCCTACCACGGCGCCTTCAGCTTCGACGCCTTCTCCCACAGGAAGGCCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G103546_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os12g07810.1 (Oryza sativa), 3'ss of exon 9
-gtatatatatacgcatggctgctgacatttgtcttgctgagtctgctaccatagctgatgcatggctga--ctgctttgctttctgaactgtg--tgcagCTGACAAACCCGAACCTGCCGTTCGGAGGAGTCGGGGAGAGCGGCATGGGCGCCTACCACGGCGCCTTCAGCTTCGACGCCTTCTCCCACAGGAAGGCCG
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tgcattt-taagcatatcatgacttacatgttaactgatgcaaacaacattgctaaccaagtgtgactgattctgatgtgtctgcaaaaataccactgcagCTAACAAACCAGTACCTACCTTTTGGAGGAGTTGGGGAGAGCGGCATGGGAGCCTACCATGGCAGGTTCAGCTTCGAGGCCTTCAGCCACAAGAAGGCCG
upper sequence: GRMZM2G103546_T01 (Zea mays), 3'ss of exon 9
lower sequence: EFJ20761 (Selaginella moellendorffii), 3'ss of exon 9
----gtatatatatacgcatggctgctgacatttgtcttgctgagtctgctaccatagctga--tgcatggctgactgctttgctttctgaactgtgtgcagCTGACAAACCCGAACCTGCCGTTCGGAGGAGTCGGGGAGAGCGGCATGGGCGCCTACCACGGCGCCTTCAGCTTCGACGCCTTCTCCCACAGGAAGGCCG
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ttgattggacactctcgttttgattcttccagttcttgacagccaccctctggtttgattggactcccagtctcactctctctcgttttgg--ttcttgcagTTCTTGACAACCACACTCCCATTCGGTGGAGTCGGAGAGAGCGGCATGGGATCCTACCACGGCAAGTTCTCGTTCGACGCCTTCAGCCACCACAAGGCAAMapped 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|71439164|gb|DR820214.1|DR820214EST: AGAGGACCGTCTCGGCGGGAGGGATCATGTTCAACGACACCGGCATCCAC CTGACAAACCCGAACCTGCCGTTCGGAGGAGTCGGGGAGAGCGGCATGGGC
genomic: AGAGGACCGTCTCGGCGGGAGGGATCATGTTCAACGACACCGGCATCCACgtatatatat ... ctgtgtgcagCTGACAAACCCGAACCTGCCGTTCGGAGGAGTCGGGGAGAGCGGCATGGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgctaccatagctgatgcatggctgactgctttgctttctgaactgtgtgcagCTGACAAACCCGAACCTGCCGTTCGGAGGAGTCGGGGAGAGCGGCATGGGCGCCTACCACGGCGCCTTCAGCTTCGACGCCTTCTCCCACAGGAAGGCCG
ggctgac putative branch site (score: 3)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatatatacgcatggctgctgacatttgtcttgctgagtctgctaccatagctgatgcatggctgactgctttgctttctgaactgtgtgcagCTGACAAACCCGAACCTGCCGTTCGGAGGAGTCGGGGAGAGCGGCATGGGCGCCTACCACGGCGCCTTCAGCTTCGACGCCTTCTCCCACAGGAAGGCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT