Sequence
atgc intronic sequence ATGC exonic sequencegtctagctttcttgcatgatgaaggaccctttcaggtgagcatgctacttgatttatggtcttatggcatcacacaaaaggtgtgcttttaattttttatttggcattcaaccacaatatcttataataccgagctgctgacttaactggtatttatatttccatttgtttttcagGCCATGTACAACGAGTTCTCAACTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G380227_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g60700.2 (Oryza sativa), 3'ss of exon 3
gtctagctttcttgcatgatgaaggaccctttcaggtgagcatgctacttgatttatggtcttatggcatcacacaaaaggtgtgcttttaattttttatttggcattcaaccacaatatcttataatacc-gagctgctgacttaa-ctggtatttatatttccatttgtttttcagGCCATGTACAACGAGTTCTCAAC-TTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGAT
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-------------------------------------gttactgcttctaaactttttctttt-tgacattac-caataagtgaatattta---ttttacctagttatatagtacattggttgatggtttttgaccttgtggtttaaactcttattcatatgtt-attttttttacagGCCATGTACAATGACTTCTCAACCTCAAACATCCAAATTGACAAAGATTTCACTGCAAAGCTATCAGGATATGGATGTGTTGGATTCAATACCGAGGAGG-
upper sequence: GRMZM2G380227_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA09G41160.1 (Glycine max), 3'ss of exon 3
gtctagctttcttgcatgatgaaggaccctttcaggtgagcatgctacttgatttatggtcttatggcatcacacaaaaggtgtgcttttaattttttatttggcattcaaccacaatatcttataataccgagctgctgacttaactggtatttatatttccatttgtttttcagGCCATGTACAACGAGTTCTCAACT-TGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGAT
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---------------------------------------------------------atttgtttttcgtagtatggagtgaatgatttcaagatgttat---------gattattaggt-taactacaca----tgttatctttgctgacatccttatttttgtctg-----cagGCAATGTATAATGAGTTCTCAACAGCCAACATACAGATTGACAAAGATTTCAGTGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAGGAAG-
upper sequence: GRMZM2G380227_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA18G44630.1 (Glycine max), 3'ss of exon 2
gtctagctttcttgcatgatgaaggaccctttcaggtgagcatgctacttgatttatggtcttatggcatcacacaaaaggtgtgcttttaattttttatttggcattcaaccacaatatcttataataccgagctgctgacttaactggtatttatatttccatttgtttttcagGCCATGTACAACGAGTTCTCAACT-TGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGAT
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------------------------------tacaact-ataataacactttgttttgtttttcatagtatggagcgaa-----tgatttcaagtatgttatgattattaggtta----attatacact---------ttatctttgctgacatccttctttctgcttgt-----aggCTATGTATAATGAGTTCTCAACAGCCAACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttataataccgagctgctgacttaactggtatttatatttccatttgtttttcagGCCATGTACAACGAGTTCTCAACTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGAT
tttccatttgtttttc CT-rich tract
tatttatatttccatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctagctttcttgcatgatgaaggaccctttcaggtgagcatgctacttgatttatggtcttatggcatcacacaaaaggtgtgcttttaattttttatttggcattcaaccacaatatcttataataccgagctgctgacttaactggtatttatatttccatttgtttttcagGCCATGTACAACGAGTTCTCAACTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT