Sequence
atgc intronic sequence ATGC exonic sequence...cgcttcacttgttttcttttgtattgatacctatactatttcaattcatttcttttatcaacctcattatctaacattcccatactctatttatatgcagCTCTTCAAATGTCTGTCCAGGATGCAAACATGTCCAGTGACACTGATATGAGTAAGGTGTTTGAAGACATAACGTTTGTGTCATCTATCCTTAATTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G070550_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g13970.1 (Oryza sativa), 3'ss of exon 7
--cgcttcacttgttttcttttgtattgatacctatactatttcaattcatttcttttatcaacctcattatctaacattcc-catactctatttatatgcagCTCTTCAAATGTCTGTCCAGGATGCAAACATGTCCAGTGACACTGATATGAGTAAGGTGTTTGAAGACATAACGTTTGTGTCATCTATCCTTAATTCA
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acaagctaacttgtaaagaaaagc-tcagcatgcaaagaaacacatttagacatttccat--gctctttggtctgatgtttaaccaatttgatttctgcgcagCTCTTCAAATGTCTGTCCAGGACGCAGGCGGGTCTAGTCAGTCTGATATGAGCAAGGTGTTTGAAGACAGATCATTTGTTACATCCATCCTTAACTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatttcttttatcaacctcattatctaacattcccatactctatttatatgcagCTCTTCAAATGTCTGTCCAGGATGCAAACATGTCCAGTGACACTGATATGAGTAAGGTGTTTGAAGACATAACGTTTGTGTCATCTATCCTTAATTCA
atctaac putative branch site (score: 2)
ctctattt putative PPT
atactctatttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgcttcacttgttttcttttgtattgatacctatactatttcaattcatttcttttatcaacctcattatctaacattcccatactctatttatatgcagCTCTTCAAATGTCTGTCCAGGATGCAAACATGTCCAGTGACACTGATATGAGTAAGGTGTTTGAAGACATAACGTTTGTGTCATCTATCCTTAATTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
-gcttcac
- - - - - - - - - -tgtattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catactc