Sequence
atgc intronic sequence ATGC exonic sequence...tgaattgatcgctaaattccattacaattgagaagatttttctatggggatttatcaacttttggagggaccaagtatgataaagtaatgaaactaacagGAAGATGTGGAAGCTGAAATGAGGAGGCTAAAGCTGGAGCTCAAGCAGACAATGGATATGTACAGTACAGCCTGCAAAGAAGCACTCTCAGCGAAACAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G165433_T01 (Zea mays), 3'ss of exon 2
-tgaattgatcgctaaattccattacaattgagaagatt-tttctatggggatttatcaacttttg--gagggaccaagtatgataaagtaatgaaactaacagGAAGATGTGGAAGCTGAAATGAGGAGGCTAAAGCTGGAGCTCAAGCAGACAATGGATATGTACAGTACAGCCTGCAAAGAAGCACTCTCAGCGAAACAGA
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gtgagtag-tgagtactccctctgtcgactcagatctccattcctagcaagcatcttgaattcttgacgagggaaactctctgtttccctaataataacagCAGGACGACGTGGAGGCGGAGATGAAGAGGCTTCGCCTGGAGCTCAAGCAGACAATGGACATGTACAGCACGGCCTGCAAGGAGGCGCTGACGGCGAAAC---
upper sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G18380.1 (Glycine max), 3'ss of exon 6
tgaattgatcgctaaattc--cattacaattgagaagatttttctatggggatttatcaacttttggagggaccaagtatgataaagtaatgaaactaacagGAAGATGTGGAAGCTGAAATGAGGAGGCTAAAGCTGGAGCTCAAGCAGACAATGGATATGTACAGTACAGCCTGCAAAGAAGCACTCTCAGCGAAACAGA
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tagaaacatcaaatagtcaaatattttagttacttgcatgttcgtattttaattcttgattgctactaccttgtgaata-aatcatttcttgcaagtt-tagGATGACGTGGAGGCTGAAATGAGAAGACTGAAGTTGGAGCTCAATCAAATAATGGAAAAGTACAGCAATGCCTGCAAAGAAGCATTCAAAGCTCAGCAAA
upper sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G24370.1 (Arabidopsis thaliana), 3'ss of exon 6
tgaattgatcgctaaattccattacaattgagaagatttt--tctatggggatttatcaacttttggagggaccaagtatgataaagtaatgaaactaacagGAAGATGTGGAAGCTGAAATGAGGAGGCTAAAGCTGGAGCTCAAGCAGACAATGGATATGTACAGTACAGCCTGCAAAGAAGCACTCTCAGCGAAACAGA
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---------------------gtaagactgataaaatcttaatcgtttggtatataactagtgttattgacattctg------aaaattaccaaa--agcagGATGATGTAGAGGCTGAGATGAGGAGGCTTAAACTGGAGTTGAAGCAGACTATGGAAATGTATAGTACAGCTTGCAAAGAAGCACTCACAGCAAAACAAA
upper sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G31230.1 (Arabidopsis thaliana), 3'ss of exon 6
--tgaattgatcgctaaattccattacaattgagaagatttttctatggggatttatcaacttttggagggaccaagtatgataaagtaatgaaactaacagGAAGATGTGGAAGCTGAAATGAGGAGGCTAAAGCTGGAGCTCAAGCAGACAATGGATATGTACAGTACAGCCTGCAAAGAAGCACTCTCAGCGAAACAGA
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gtaagactgatctgtgaatcttttttcgggttacatacttgt---------aactgctagatgcaagagtatgtaaccagattagaattgtaat-----cagGATGATGTAGAGGCTGAGATGAGGAGGCTTAAACTGGAGCTGAAACAAACGATGGAAATGTACAGTACAGCCTGTAAGGAAGCTCTCACAGCAAAACATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggggatttatcaacttttggagggaccaagtatgataaagtaatgaaactaacagGAAGATGTGGAAGCTGAAATGAGGAGGCTAAAGCTGGAGCTCAAGCAGACAATGGATATGTACAGTACAGCCTGCAAAGAAGCACTCTCAGCGAAACAGA
tatgataaagtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaattgatcgctaaattccattacaattgagaagatttttctatggggatttatcaacttttggagggaccaagtatgataaagtaatgaaactaacagGAAGATGTGGAAGCTGAAATGAGGAGGCTAAAGCTGGAGCTCAAGCAGACAATGGATATGTACAGTACAGCCTGCAAAGAAGCACTCTCAGCGAAACAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - ccattac
- - - - - - - - - - - - - - -gagaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaagta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagtaa