Sequence
atgc intronic sequence ATGC exonic sequence...tgtgtgaaggagaatgttttattaggagataaatcatctattattttgaaaactttttcctggcttgcaggtctgattcactctaatgtgtattttgaagCCAGGGACATTCTATGCTTTGCCCCAAAGTCCACAACTGTTTAAGCAAATGCTAATGGTCTCCGGCTTTGATAAATATTATCAAATAGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0088g00500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G378717_T01 (Zea mays), 3'ss of exon 5
--tgtgtgaaggagaatgttttattaggagataaatcatctattattttgaaaactttttcctggcttgcaggtctgattcactctaatgtgtattttgaagCCAGGGACATTCTATGCTTTGCCCCAAAGTCCACAACTGTTTAAGCAAATGCTAATGGTCTCCGGCTTTGATAAATATTATCAAATAGCAAG
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actgtttgtagtaggtctaatagcaagacagtggtgtttcttaccttttcaaatataactgctatatgttc--cctgatttcttacaatatggtctctgaagCCAGGAACATTCTACGCTCTCCCTCAAAGCCCTCAGCTGTTCAAGCAAATGTTGATGGTTTCTGGTTTTGAAAAATATTATCAGATTGCAAG
upper sequence: Vv03s0088g00500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G04870.1 (Glycine max), 3'ss of exon 5
tgtgtgaag-gagaatgttttattaggagataaatcatctat-tattttgaaaactttttcctggct--tgcaggtctgattcactctaatgtgtattttgaagCCAGGGACATTCTATGCTTTGCCCCAAAGTCCACAACTGTTTAAGCAAATGCTAATGGTCTCCGGCTTTGATAAATATTATCAAATAGCAAG
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agagtaagctgagaat----caatggaagcttttttttctctattttttgtgagctacttagttgatattgttttgttgattcactatcacatgaattatgaagCCAGGAACATTCTATGCCTTGCCACAAAGTCCTCAGCTATTTAAGCAAATGCTAATGGTAGCTGGTTTTGACAAATATTATCAGATTGCAAG
upper sequence: Vv03s0088g00500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G34820.1 (Glycine max), 3'ss of exon 5
-tgtgtgaaggagaatgttttattaggaga-taaatcatctattattttgaaaactttttcctggc-ttgcaggtctgattcactctaatgtgtattttgaagCCAGGGACATTCTATGCTTTGCCCCAAAGTCCACAACTGTTTAAGCAAATGCTAATGGTCTCCGGCTTTGATAAATATTATCAAATAGCAAG
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aagagtacaacgaaaggc---agtagaagtcttttttatctattttttgtgagctacttaattgatattgttttattgattcactatcacatgaattatgaagCCAGGAACATTCTATGCCTTGCCACAAAGTCCTCAGCTATTTAAGCAAATGCTAATGGTAGCTGGTTTTGATAAATACTATCAGATTGCAAG
upper sequence: Vv03s0088g00500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G33760.1 (Arabidopsis thaliana), 3'ss of exon 5
--------------tgtgtgaaggagaatgttttattaggagataaatcatctattattttgaaaactttttcctggcttgcaggtctgattcactctaatgtgtattttgaagCCAGGGACATTCTATGCTTTGCCCCAAAGTCCACAACTGTTTAAGCAAATGCTAATGGTCTCCGGCTTTGATAAATATTATCAAATAGCAAG
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gtgccaatacttttttcatcctaatgtatttcccaacaaagaattaagtttccctgaagtataagcttatatcatagtttataggtctgattctatctaattt-tctttcgaagTCAGGAACATTCTATGCTTTGCCACAAAGTCCACAGCTCTTCAAGCAGATGTTAATGGTCTCTGGTTTTGACAAATATTACCAGATAGCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaaaactttttcctggcttgcaggtctgattcactctaatgtgtattttgaagCCAGGGACATTCTATGCTTTGCCCCAAAGTCCACAACTGTTTAAGCAAATGCTAATGGTCTCCGGCTTTGATAAATATTATCAAATAGCAAG
ctctaat putative branch site (score: 3)
tattttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgtgaaggagaatgttttattaggagataaatcatctattattttgaaaactttttcctggcttgcaggtctgattcactctaatgtgtattttgaagCCAGGGACATTCTATGCTTTGCCCCAAAGTCCACAACTGTTTAAGCAAATGCTAATGGTCTCCGGCTTTGATAAATATTATCAAATAGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
tgtgtga
- - - -aggagaa
- - - - - - - - - - - - - - - aaatcat
- - - - - - - - - - - - - - - - - - - - - - -ttgaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgattc