Sequence
atgc intronic sequence ATGC exonic sequence...gttttgatatgttgattgcaaacaacctaaaacgtcaaagaattgatactatggtggagacgccacaagacatgttttctgatatatctttcatttgcagTTGTGAGTGTGGGGGCAGCACTGTTTTTGTTCCAGCAGCTTGCTGGTATAAACGCTGTTGTATATTACTCTACATCGGTGTTCCGTAATGCAGGCATTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G098011_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g04190.4 (Oryza sativa), 3'ss of exon 9
----------------------------------------------------------------gttttgata--tgttgattgcaaacaacctaaaacgtcaaagaattgatactatggtggagacgcca--caagacatgt-tttctgatatatcttt-cat-ttgcagTTGTGAGTGTGGGGGCAGCACTGTTTTTGTTCCAGCAGCTTGCTGGTATAAACGCTGTTGTATATTACTCTACATCGGTGTTCCGTAATGCAGGCATTAC
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gtagttttgttttctctgtttcagatctgactattttgattcctcaaattgcatcatgaaatcttccctgattgttatttcctactcttgtgttgctaaaataaaaacccaacatt-taaccaaaacatcagtttggtgatttgttgctgacatattttttcataccgcagTTGTTAGTGTGGGCGCAGCTATGTTCTTGTTCCAACAGCTTGCCGGTATAAATGCTGTTGTATATTACTCTACATCGGTGTTCCGCAGTGCAGGCATTGC
upper sequence: GRMZM2G098011_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA13G07780.1 (Glycine max), 3'ss of exon 9
-----gttttgatatgttgattgcaaacaacctaaaacgtcaaagaattgatactatggtggagacgccacaagacatgttttctgatatatctttcatttgcagTTGTGAGTGTGGGGGCAGCACTGTTTTTGTTCCAGCAGCTTGCTGGTATAAACGCTGTTGTATATTACTCTACATCGGTGTTCCGTAATGCAGGCATTAC
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taatttcactgacaacttgtttttcgtttac-tatatagttgattaaatgaattcttatatgaaatagtatagcac---ttccttaaaatatgccttgttt-cagTTGTCAGTGTTGGGGCAGCACTTTTCTTGTTCCAGCAGTTGGCTGGAATAAATGCTGTAGTGTATTATTCAACTTCTGTGTTCCGTAGTGCTGGAATTGC
upper sequence: GRMZM2G098011_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 3'ss of exon 9
-gttttgatatgttgattgcaaacaacc-taaaacgtcaaagaattgatactatggtggagacgccacaagacatgttttctgatatatctttcat-ttgcagTTGTGAGTGTGGGGGCAGCACTGTTTTTGTTCCAGCAGCTTGCTGGTATAAACGCTGTTGTATATTACTCTACATCGGTGTTCCGTAATGCAGGCATTAC
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aggttcaat---tcccttgcaagttgctgctatacttgcagtcatgctttctggtgcaattatgttgaaagcagatttttatgacacatgcatcttgctgcagTTGTGAGTGTTGGCGCAGCACTTTTCTTGTTCCAACAGTTGGCCGGCATAAATGCTGTGGTGTACTATTCAACATCTGTGTTCCGCAGTGCTGGAATTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactatggtggagacgccacaagacatgttttctgatatatctttcatttgcagTTGTGAGTGTGGGGGCAGCACTGTTTTTGTTCCAGCAGCTTGCTGGTATAAACGCTGTTGTATATTACTCTACATCGGTGTTCCGTAATGCAGGCATTAC
ttctgat putative branch site (score: 3)
tctttcattt putative PPT
atatatctttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttgatatgttgattgcaaacaacctaaaacgtcaaagaattgatactatggtggagacgccacaagacatgttttctgatatatctttcatttgcagTTGTGAGTGTGGGGGCAGCACTGTTTTTGTTCCAGCAGCTTGCTGGTATAAACGCTGTTGTATATTACTCTACATCGGTGTTCCGTAATGCAGGCATTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT