Sequence
atgc intronic sequence ATGC exonic sequencegtatcgatttcagtttttatattttatcattatgaaatctggatgaagattttgatcacacatatatatcaagttttgaaggcttccagagcattgtgttatgctatttattttatctgcaaatttatgaaattatgcatttatttttctgttctcaaactaaaatcttgtttccttcgataaaatatttagGAGGCCCTCTGCCAAAAGCCTTTTCGAATCTCCATACTTTCTCACAACAGTCAGGTCATCCTACTTGTTTGTTGCCCCACTTCAGCTTTTAGCAAAAGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g00030.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G28910.1 (Glycine max), 3'ss of exon 5
gtatcgatttcagtttttatattttatcattatgaaatctggatgaagattttgatcacacatatatatcaagttttgaaggcttccagagcattgtgttatgctatttattttatctgcaaatttatgaaattatgcatttatttttctgttctcaaactaaaatcttgtttccttcgataaaatatttagGAGGCCCTCTGCCAAAAGCCTTTTCGAATCTCCATACTTTCTCACAACAGTCAGGTCATCCTACTTGTTTGTTGCCCCACTTCAGCTTTTAGCAAAAGAT
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-----------------------------------------------------------------gtatcagtgtgtatgcacacacatacaactga---atgc-atgtgtttggcctaattaggtctgacttt-tgtgattgtttttctatcacattatttaagtatttatttttt-------atatgtagGAGGCCATCTGCCAAAATTCTTCTGGAATCTCCTTATTTTCCAAAGACTGTCAAGTCCTCCTACTTGTTTCTTGCTCCACTTCAGCTTGTAGCTAAAGAT
upper sequence: Vv05s0020g00030.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G38870.1 (Glycine max), 3'ss of exon 3
gtatcgatttcagtttttatattttatcattatgaaatctggatgaagattttgatcacacatatatatcaagttttgaaggcttccagagcattgtgttatgctatttattttatctgcaaatttatgaaattatgcatttatttttctgttctcaaactaaaatcttgtttccttcgataaaatatttagGAGGCCCTCTGCCAAAAGCCTTTTCGAATCTCCATACTTTCTCACAACAGTCAGGTCATCCTACTTGTTTGTTGCCCCACTTCAGCTTTTAGCAAAAGAT
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-----------------------------------------------------------------gtatcagtgtgtttgcacacacatacaattaa---atgc-atgtgtttggcctaattatgtacgattttg-gtggttgtttatctatcatgttatttaagtattgatttttgc-------tatgtagGAGGCCATCTGCCAAAATTCTTCTGGAATCTCCTTATTTTCCAAATACTGTCAAATCCTCCTACTTGTTTCTTGCTCCACTTCAGCTTGTAGCTAAAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catttatttttctgttctcaaactaaaatcttgtttccttcgataaaatatttagGAGGCCCTCTGCCAAAAGCCTTTTCGAATCTCCATACTTTCTCACAACAGTCAGGTCATCCTACTTGTTTGTTGCCCCACTTCAGCTTTTAGCAAAAGAT
aactaaa putative branch site (score: 2)
ttcgataaaatattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcgatttcagtttttatattttatcattatgaaatctggatgaagattttgatcacacatatatatcaagttttgaaggcttccagagcattgtgttatgctatttattttatctgcaaatttatgaaattatgcatttatttttctgttctcaaactaaaatcttgtttccttcgataaaatatttagGAGGCCCTCTGCCAAAAGCCTTTTCGAATCTCCATACTTTCTCACAACAGTCAGGTCATCCTACTTGTTTGTTGCCCCACTTCAGCTTTTAGCAAAAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT