Sequence
atgc intronic sequence ATGC exonic sequence...tttaactatgtttgagttaaactttatccctgagttctttaggtaagttttcagaatcaatggaattgaatgttgatgaggttaatctacactatggcagGATGTTTGGTTGCGATCTCTATCGCAAAAGAGGAATCCAACAAATTGGGAACAGTTATTGGTATTGATCTTGGAACAACTTACTCTTGTGTTGGTGTTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G36600.1 (Glycine max), 3'ss of exon 1
tttaactatgtttgagttaaact-ttatccctgagttctttaggtaagttttcagaatcaatggaattgaatgttgat-gaggttaatctacactatggcagGATGTTTGGTTGCGATCTCTATCGCAAAAGAGGAATCCAACAAATTGGGAACAGTTATTGGTATTGATCTTGGAACAACTTACTCTTGTGTTGGTGTTTA
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--catgaatgaatgagactacctactttacgtgagtcagtttgccatcaatttaactagtttgagtttacattgtaattaatgttgagagagttcatcgcagTATGTCTATTTGTGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACAACCTATTCATGTGTTGGTGTTTA
upper sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G02960.1 (Glycine max), 3'ss of exon 1
tttaactatgtttgagttaaactttatccctgagttctttaggtaagttttcagaatcaatggaattgaatgttgat-gaggttaatctacactatggcagGATGTTTGGTTGCGATCTCTATCGCAAAAGAGGAATCCAACAAATTGGGAACAGTTATTGGTATTGATCTTGGAACAACTTACTCTTGTGTTGGTGTTTA
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catgaataaatgaga-ttacttactttacgcgagtcagtttgtcatgaatttaactagtttgagtttacattgtaattaaccttgagagagttcatcgcagGATGTCTATTTGCGATTTCCATTGCAAAGGAGGAAGCCACCAAGTTGGGGACGGTCATTGGGATTGATCTTGGAACGACCTATTCATGTGTTGGTGTTTA
upper sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G42020.1 (Arabidopsis thaliana), 3'ss of exon 1
---tttaactatgtttgagttaaactttatccctgagttctttaggtaa-gttttcagaatcaatggaattgaatgttgatgaggttaatctacactatggcagGATGTTTGGTTGCGATCTCTATCGCAAAAGAGGAATCCAACAAATTGGGAACAGTTATTGGTATTGATCTTGGAACAACTTACTCTTGTGTTGGTGTTTA
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catttcattgataatagagtgaaattaagttttgagattggttgattggtgtttttggttttgatagtttt-attgacgattgaaattttttacgatt---cagGATGTTTATTTGCGTTTTCCACTGCAAAAGAAGAGGCTACGAAGTTAGGATCAGTTATTGGGATAGATCTTGGTACCACTTACTCTTGTGTTGGTGTTTA
upper sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G28540.1 (Arabidopsis thaliana), 3'ss of exon 1
----------------------------------------------------------------------tttaactatgtttgagttaaactttatccctgagttctttaggtaagttttcagaatcaatggaattgaatgttgatgaggttaatctacactatggcagGATGTTTGGTTGCGATCTCTATCGCAAAAGAGGAATCCAACAAATTGGGAACAGTTATTGGTATTGATCTTGGAACAACTTACTCTTGTGTTGGTGTTTA
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gtgagtgattttccgatcttcttctccgatttagatctcctctacattgttgcttaatctcagaaccttttttcgttgttcctggatctgaatgtgtttgtttgcaatttcacgatcttaaaaggttagatctcgattggtattgacgattggaatctttacgatttcagGATGTTTATTTGCGTTGTCCTCTGCAATAGAAGAGGCTACGAAGTTAGGATCAGTGATAGGGATAGATCTTGGTACTACTTACTCTTGTGTTGGTGTTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttttcagaatcaatggaattgaatgttgatgaggttaatctacactatggcagGATGTTTGGTTGCGATCTCTATCGCAAAAGAGGAATCCAACAAATTGGGAACAGTTATTGGTATTGATCTTGGAACAACTTACTCTTGTGTTGGTGTTTA
ggttaat putative branch site (score: 4)
aattgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaactatgtttgagttaaactttatccctgagttctttaggtaagttttcagaatcaatggaattgaatgttgatgaggttaatctacactatggcagGATGTTTGGTTGCGATCTCTATCGCAAAAGAGGAATCCAACAAATTGGGAACAGTTATTGGTATTGATCTTGGAACAACTTACTCTTGTGTTGGTGTTTA
- - - - - - - - - - - - - tccctga
- - - - - - - - - - - - - - - - - - - - - - - - - - -gaatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aattgaa