Sequence
atgc intronic sequence ATGC exonic sequencegtatacctttgttgtttttcaaatttctgatgttgaaagacaaaccattcttttttgtgatttatagGTTATTGGTGGGACTGTCAATGAGAATGGATGCATACTGGTTAAGGCTACTCATGTTGGATCAGAGACTGCGCTCTCCCAAATTGTTCAACTAGTGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g10290.1 (Oryza sativa), 3'ss of exon 4
-----------gtatacctttgttgtttttcaaatttctg-atgttgaaagacaaaccattctttt---ttgtgatttatagGTTATTGGTGGGACTGTCAATGAGAATGGATGCATACTGGTTAAGGCTACTCATGTTGGATCAGAGACTGCGCTCTCCCAAATTGTTCAACTAGTGGAAG
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gttggtattttttggatcctgattgtatttgctcttgttatgaactagtatcctgatggttcaattgacttgtttttaacagGTTATTGGTGGTACTGTAAATGACAATGGTTGTATAATTGTTAAGGTCACTCATGTTGGGTCAGAAACAGCTTTGTCACAGATAGTTCAGTTAGTTGAAG
upper sequence: Vv06s0004g01890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G029951_T01 (Zea mays), 3'ss of exon 3
gtatacctt--tgttgt-ttttcaaatttctg-atgttgaaag-acaaaccattcttttttgtgattta-------------tagGTTATTGGTGGGACTGTCAATGAGAATGGATGCATACTGGTTAAGGCTACTCATGTTGGATCAGAGACTGCGCTCTCCCAAATTGTTCAACTAGTGGAAG
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gtaaactctattataatgctttggggtttgtgtataataataccacattctatttgttctgatgcttcaatttgttttgcaacagGTTATTGGGGGTACTGTAAATGATAACGGTTGCATAATTGTTAAGGCGACTCATGTTGGGTCAGAAACAGCTTTGTCGCAAATAGTCCAGTTGGTTGAAG
upper sequence: Vv06s0004g01890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G21650.1 (Glycine max), 3'ss of exon 3
---------------------------------gtatacctttgttgtttttcaaatttctgatgttgaaagacaaaccattcttttttgtgatttatagGTTATTGGTGGGACTGTCAATGAGAATGGATGCATACTGGTTAAGGCTACTCATGTTGGATCAGAGACTGCGCTCTCCCAAATTGTTCAACTAGTGGAAG
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gaaatgtataacctttgattccaagttctaatggttcaaattagtgtaaaggtagcatgatagagtggtaagaacatttttaatttcatgtgctggacagGTTATCAGTGGAACCATTAATGAGAATGGCTGCATACTGGTTAAGGCCACACATGTTGGATCTGACACTGCACTTTCTCAAATAGTTCAGCTCGTTCAAG
upper sequence: Vv06s0004g01890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G10760.1 (Glycine max), 3'ss of exon 4
---------------------------------gtatacctttgttgtttttcaaatttctgatgttgaaagacaaaccattcttttttgtgatttatagGTTATTGGTGGGACTGTCAATGAGAATGGATGCATACTGGTTAAGGCTACTCATGTTGGATCAGAGACTGCGCTCTCCCAAATTGTTCAACTAGTGGAAG
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tttttttattccatgttctagtggttcaaattagtctaaagtggcatgatttagtggtaagaacatttttaattttaatttcttttgttgtgctggacagGTTATCAGTGGAACCATCAATGAGAATGGCTGCTTATTGGTTAAAGCCACACATGTTGGATCCGACACTGCACTTTCTCAAATAGTTCAACTCGTAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttttcaaatttctgatgttgaaagacaaaccattcttttttgtgatttatagGTTATTGGTGGGACTGTCAATGAGAATGGATGCATACTGGTTAAGGCTACTCATGTTGGATCAGAGACTGCGCTCTCCCAAATTGTTCAACTAGTGGAAG
ttctgat putative branch site (score: 3)
ccattcttttttgt putative PPT
ttttttgtgatttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatacctttgttgtttttcaaatttctgatgttgaaagacaaaccattcttttttgtgatttatagGTTATTGGTGGGACTGTCAATGAGAATGGATGCATACTGGTTAAGGCTACTCATGTTGGATCAGAGACTGCGCTCTCCCAAATTGTTCAACTAGTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG