Sequence
atgc intronic sequence ATGC exonic sequence...aaattaccaaggtccttgtctgaagtgctctccgatcttagcatttaaaacaccatggagaataattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os11g32490.1 (Oryza sativa), 3'ss of exon 8
--------aaattaccaaggtccttgtctgaa-gtgctctccgatcttagcatttaaaacaccatgga--gaataattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTG
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gtatcgctctgttatacatgtattcatctaaccatcctaagtaatgtaacatttttaaatcttctggcttggcacactgaatactttcttgtttcgattgtaaattaaaagGAAATCAAGCACAGAAGCCAAGCCGGATCGAGGAATATTTGTAAAGCATTTCAAGAACATTCCAATGGCTGATATGGAATTAGTTCTG
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os12g29550.1 (Oryza sativa), 3'ss of exon 8
------------------aaattaccaaggtccttgtctgaagtgctctccgatcttagcatttaaaacacc-atggagaataattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTG
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gtaactttgaccctttgatattttgtttagccaatctccacattcatgaaggatcctaattttagaagtgctgatgtagtacaattggttccttccgatgattgtatatg----tgcagGAGGGCAGGTACTAAGACTAAGCCTGATCGAGGAATATTTGTAAAGCATTTCAAGAATATCCCAATGGCTGACATGGAAATTGTTCTT
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G27800.1 (Glycine max), 3'ss of exon 8
aaattaccaaggtccttgtctgaagtgctctccgatcttagcatttaaaacaccatggagaataattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTG
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--------------------------gtagatctgccttatatctcaaacttctgttgaaatt------ttgaaatctaagaag-caaactatttttcagGAGAGCCAGAACCAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTTCTT
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G05180.1 (Glycine max), 3'ss of exon 8
aaattaccaaggtccttgtctgaagtgctctccgatcttagcatttaaaacaccatggagaataattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTG
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--------------------------gtagatcttccttatatctcaaacttctgttgaaatt------ttgaaatctaagaag-caaactatttttcagGGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTT
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G26360.1 (Glycine max), 3'ss of exon 8
aaattaccaaggtccttgtctgaagtgctctccgatc--ttagcatttaaaacaccatggagaat---aattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTG
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--gttcgtgtaagtaatgcttggattgggattaaataagtatgctgtagaaaatccgtgagtaattgtattctactgaagtctaaggaaat---tgtttcttcagGCCAGCTAGCTCCAATTCAAAAAAAGAAAGAGGAATTTTTGTGAAGCATTTCAAGAACATTCCAATGGCTGATATGGAAATAGTTCTT
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G07370.1 (Glycine max), 3'ss of exon 8
aaattaccaaggtccttgtctgaagtgctctccgatcttagcat----ttaaaacaccatggagaat---aattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTG
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-------tgagctatcttcagagggttttggttcatgtaagtatgctgtggaaaatccatgagtaattttattctattgaagtctaagttggaaattttttcttcagGCCAGCTAGTTCCAATTCAAAAAAAGAAAGAGGAATTTTTGTGAAGCATTTCAAGAACATTCCAATGGCTGATATGGAAATAGTTCTT
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G19340.1 (Arabidopsis thaliana), 3'ss of exon 8
aaattaccaaggtccttgtctgaagtgctctccgatcttagcatttaaaacaccatggaga-ataattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTG
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------gtaaggtatatgtatgtcttgtt-tcagctatttg--tttgtaactttgtgaacttgtggttca--agcttgt-----ggtttatgatgttgcagACGAGCTAGCTCTAAAACAAATCTAGAACGAGGAATCTACGTTAAGCATTTCAAAAACATTCCTATGGCTGACATGGAGATTGTGCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaaacaccatggagaataattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTG
atctaac putative branch site (score: 2)
aataattcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaattaccaaggtccttgtctgaagtgctctccgatcttagcatttaaaacaccatggagaataattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - tgtctga
- - - - - - - - - - - - -tgctctc
- - - - - - - - - - - - - - - - - - - - - - - -aaacacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaaga