Sequence
atgc intronic sequence ATGC exonic sequence...ttttctatagatttgagtctcgtctatacatatttttagtttcacaattttattctaactttctttgcattcttgtcaaatatatataaattggatgtagCTTGATACGTCCTCATTCATGGAGGAATTTGGCCTGCCCTCAAAAACGAGAACCAAAGATGGATACAACCCACTGCTGGATGACTTCAAGAACACTAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0136g00320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G03240.1 (Glycine max), 3'ss of exon 8
ttttctatagatttgagtctcgtctatacatatttttagtttcacaattttattctaactttctttgcattcttgtcaaatatatataaattggatgtagCTTGATACGTCCTCATTCATGGAGGAATTTGGCCTGCCCTCAAAAACGAGAACCAAAGATGGATACAACCCACTGCTGGATGACTTCAAGAACACTAAAT------------------------
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-----------------------------------------------------------------------------------gtttatatttgatgtagctagaaacatcatctttcatggagGAGTTTGGTTTGCCCACAAAAACAAGAACCAAGGACGGATACAACCCACTCTTGGATGACTTCAAGAATACCAAATTTTATCTTAGCGTCCCTACACACA
upper sequence: Vv05s0136g00320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G04900.1 (Arabidopsis thaliana), 3'ss of exon 12
ttttctatagatttgagtctcgtctatacatatttttagtttcacaattttattctaactttctttg-cattcttgtcaaatatatataaattggatgtagCTTGATACGTCCTCATTCATGGAGGAATTTGGCCTGCCCTCAAAAACGAGAACCAAAGATGGATACAACCCACTGCTGGATGACTTCAAGAACACTAAAT
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------gtaaatcaagattctctttaaacattttaacaagagaggatatttctgatgcttttcatcaacagtcttttcttgttctcat---ttgcttgtagCTTGATACATCAGCGTTCATGGATGAGTTTGGTTTACCTTCAAAGACGAGAACAAAGGACGGATATAACCCCTTACTTGATGACTTCAAGAACACTAAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttattctaactttctttgcattcttgtcaaatatatataaattggatgtagCTTGATACGTCCTCATTCATGGAGGAATTTGGCCTGCCCTCAAAAACGAGAACCAAAGATGGATACAACCCACTGCTGGATGACTTCAAGAACACTAAAT
ttctaac putative branch site (score: 1)
attcttgtcaaatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttctatagatttgagtctcgtctatacatatttttagtttcacaattttattctaactttctttgcattcttgtcaaatatatataaattggatgtagCTTGATACGTCCTCATTCATGGAGGAATTTGGCCTGCCCTCAAAAACGAGAACCAAAGATGGATACAACCCACTGCTGGATGACTTCAAGAACACTAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatata