Sequence
atgc intronic sequence ATGC exonic sequence...cctgtgcttgtctgagctggcttgattcattcatgaaaaaccttcaaaaatcaggatttatcgttgtgtacgcatttactgacatctggaggtttgttagGTTCTTTATGATACAAGTGGCTTCTTGGAAAAGAACAGAGATCCTCTTCACTCTGATTCGATCCAACTCCTCTCATCATGTAGTTGCAAGCTTCCTCAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g03640.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA12G34780.1 (Glycine max), 3'ss of exon 19
cctgtgcttgtctgagctggcttgattcattcatgaaaaaccttcaa---aaatcaggatt-tatcgttgtgtacgcatttactgacatctggaggtttgttagGTTCTTTATGATACAAGTGGCTTCTTGGAAAAGAACAGAGATCCTCTTCACTCTGATTCGATCCAACTCCTCTCATCATGTAGTTGCAAGCTTCCTCAGT
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--tttgtttttcttagcc--tttcacgtatatgtagaatgcataccatggaagtcaatcttgtattaatgtttctgactattctaatatttggtcctttattagGTTTTGTATGATACAAGTGGCTTCCTAGAAAAGAACAGAGATCCACTACCATCTGATTCCATTCAACTACTGTCATCATGTAGTTGTGAACTGCTACAGT
upper sequence: Vv19s0014g03640.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA13G35790.1 (Glycine max), 3'ss of exon 18
cctgtgcttgtctgagctggcttgattcattcatgaaaaac-cttcaaaaatcaggatttatcgttgtgta-cgcatt-tactgacatctggaggtttgttagGTTCTTTATGATACAAGTGGCTTCTTGGAAAAGAACAGAGATCCTCTTCACTCTGATTCGATCCAACTCCTCTCATCATGTAGTTGCAAGCTTCCTCAGT
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--tttgtttttcttagcctttcaggtatatgtagaaagaataccatgtaaatcaat-cttgtttttatgtttcggactattctaatatttggtcctttattagGTTTTGTATGATACAAGTGGCTTCCTAGAAAAGAACAGAGATCCACTACCATCTGATTCCATTCAACTACTGTCATCGTGTAGTTGTGAACTGCTACAGT
upper sequence: Vv19s0014g03640.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA12G22300.1 (Glycine max), 3'ss of exon 17
--cctg--tgcttgtctgagctggcttgattcattcatgaaaaaccttcaaaaatcaggatttatcgttgtgtacgcatttactgacatctggaggtttgttagGTTCTTTATGATACAAGTGGCTTCTTGGAAAAGAACAGAGATCCTCTTCACTCTGATTCGATCCAACTCCTCTCATCATGTAGTTGCAAGCTTCCTCAGT
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tttctaattttctgtctgatccacctttgtgtggac-tgagtatgtgtcatggaaaccaattt--cgtttgatgcacatt-actaatatctggatctctattagGTTCTGTATGATACAAATGGCTTTCTAGAAAAGAACAGAGACATGTTGTCTTCTGATTCCATTCAATTCCTGTCATCATGTAATTGTGAACTGCTGCAGT
upper sequence: Vv19s0014g03640.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT4G27370.1 (Arabidopsis thaliana), 3'ss of exon 15
------------------------cctgtgcttgtctgagctggcttgattcattcatgaaaaaccttcaaaa-atcaggatttatcgttgtgtacg--cattt--actgacatctggaggtttgttagGTTCTTTATGATACAAGTGGCTTCTTGGAAAAGAACAGAGATCCTCTTCACTCTGATTCGATCCAACTCCTCTCATCATGTAGTTGCAAGCTTCCTCAGT
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gtcagttgttaccccaaatctaacaacgtatctgcatgaatagttctaatgtg---atatgtatctgtcaaattatgaaggtgcaagaaaatgaacaaacatctcactttacattatggtgtttaatagGTTCTCTATAATACAAATGGCTTCCTGGAAAAGAACAGAGATCCGCTGCATGTTGATCTTATCCAACTTTTATCATTGTGCAAATGTCAATTATTGAACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaatcaggatttatcgttgtgtacgcatttactgacatctggaggtttgttagGTTCTTTATGATACAAGTGGCTTCTTGGAAAAGAACAGAGATCCTCTTCACTCTGATTCGATCCAACTCCTCTCATCATGTAGTTGCAAGCTTCCTCAGT
tactgac putative branch site (score: 1)
atttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctgtgcttgtctgagctggcttgattcattcatgaaaaaccttcaaaaatcaggatttatcgttgtgtacgcatttactgacatctggaggtttgttagGTTCTTTATGATACAAGTGGCTTCTTGGAAAAGAACAGAGATCCTCTTCACTCTGATTCGATCCAACTCCTCTCATCATGTAGTTGCAAGCTTCCTCAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- -gtgcttg
- - - - - - -gagctgg
- - - - - - - - - - - - - tcattca
- - - - - - - - - - - - - - - - -tgaaaaa
- - - - - - - - - - - - - - - - - - - - - - -aaaaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtacgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgacat