Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcatttaattaagcaagcaatttatttgatgtcatatcattttaaatttgggataactggagctgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 35
lower sequence: LOC_Os03g02756.1 (Oryza sativa), 3'ss of exon 4
gtaagttcattta-attaagcaagcaatttatttgatgtcatatcattttaaatttgggataactggagctgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
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gtaagtgcttttacataatatatattttctatttcatga---gtcatttcaagttacatactgtcaacatttggaattcttttg-----cagAGTAAGAATGCATTATGGCCATCCAGATGTTTTTGATAGAATTTTTCATATAACGAGGGGTGGAATAAGTAAGGCCTCCCGTGTCATCAATATCAGTGAG
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 35
lower sequence: GRMZM2G453794_T01 (Zea mays), 3'ss of exon 3
gtaagttcatttaattaagcaagcaatttatttgatgtcat-atcattttaaatttgggataactggagc-tgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
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gtaagtgcttttacata-gtatgttttctgtttcacatgaggatcagctaaaattgtgtgtagttaatacatgaaaccttttcttttg--tagAGTGAGAATGCACTATGGTCATCCAGATGTTTTTGATAGAATTTTTCATATAACAAGGGGTGGAATTAGTAAGGCCTCTCGCAGCATCAATATCAGTGAG
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 35
lower sequence: GLYMA20G38860.1 (Glycine max), 3'ss of exon 40
gtaagttcatttaattaagcaagcaatttatttgatgtcatatcattttaaatttgggataactggagctgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
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gtaagcccatttta--aattaaataat------gatttctcgtca----agattcaaactaagtatgacaatgatgctctat-----tcagGGTCCGCATGCACTATGGGCATCCTGATGTTTTTGATAGAATATTCCACATAACCCGTGGTGGTATCAGCAAGGCTTCCCGTGTTATCAACATTAGTGAA
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 35
lower sequence: GLYMA10G44150.2 (Glycine max), 3'ss of exon 38
gtaagttcattt--aattaagcaagcaatttatttgatgtcatatcattttaaatttgggataactggagctgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
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gtaagcccattttaaattaaataa-tgatttcttt--tgtca---------agaatcaaactaagtatgacaatgatgctctat-----ttagGGTCCGCATGCACTATGGGCATCCTGATGTTTTTGATAGAATATTCCACGTAACCCGTGGTGGTATCAGCAAGGCTTCCCGTGTTATCAACATTAGTGAA
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 35
lower sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 37
gtaagttcatttaattaagcaagcaatttatttgatgtcatatcattttaaatttgggataactggagctgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
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gtaagttactaccaataatt------tttatcttccgtga-acaacttgaactcagatggaatccttattctattatttctgaatt-ctagGATCCGCATGCATTATGGTCATCCAGATGTCTTTGACAGAGTATTTCATATTACACGTGGTGGTATCAGCAAGGCCTCTCGGGTCATCAATATTAGTGAA
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 35
lower sequence: PP1S67_234V6.1 (Physcomitrella patens), 3'ss of exon 39
----gtaagttcatttaatta--agcaagcaatttatttgatgtcatatca--ttttaaatttgggataactggagctgaaatcttta-ataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
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aattatatgtgctgtaaatcgttagttctaatctagtatgactttgccttaggtgccaaggtttcgatgacttcgtatggttgctacatatgatgtgcagGGTGAGGATGCATTATGGTCATCCCGATGTTTTTGATCGTATATTCCATATAACAAGGGGAGGTATCAGCAAACCTTCAAAACAAATTAATCTCAGTGAA
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 35
lower sequence: PP1S88_136V6.1 (Physcomitrella patens), 3'ss of exon 36
--------------gtaagttcatttaattaagcaagcaatttatttgatgtcatat-cattttaaatttgggataactggagctgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
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ttcttcaatgccgtttggatgcacttcgaattgca-gtgcttagaccactgatatgtgtgttctatattttaactaggtaatcctgg-----ttgcatatgtacagGGTAAGAATGCATTATGGCCATCCAGATGTATTCGACAGGGTATTCCACATAACGAGGGGTGGTATCAGTAAAGCGTCACGTGTTATCAATCTTAGCGAA
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 35
lower sequence: EFJ07568 (Selaginella moellendorffii), 3'ss of exon 37
gtaagttcatttaattaagcaagcaatttatttgatgtcatatcattttaaatttgggataactggagctgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
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-----------------------------------------gtaagtctactcttggtagaacttgtagtgttaacagtttttat--ccagGGTGAGAATGCATTACGGTCATCCAGATGTTTTCGATAGAATCTTCCATATAACAAGGGGGGGCATTAGTAAAGCCTCTCGGGTCATAAACATTAGTGAG
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 35
lower sequence: EFJ05083 (Selaginella moellendorffii), 3'ss of exon 37
gtaagttcatttaattaagcaagcaatttatttgatgtcatatcattttaaatttgggataactggagctgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
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-----------------------------------------gtacgtctattcttggtagaacttgtagtgttaacagtttttatg--cagGGTGAGAATGCATTACGGTCATCCAGATGTTTTCGATAGAATCTTCCATATAACAAGGGGGGGCATTAGTAAAGCCTCTCGGGTCATAAACATTAGTGAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|30252507|gb|CB970058.1|CB970058EST: GAAACTAGCTTTGTTACTCTAGGCCAGCGTGTTCTGGCAAAACCTTTAAA GGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATAT
genomic: GAAACTAGCTTTGTTACTCTAGGCCAGCGTGTTCTGGCAAAACCTTTAAAgtaagttcat ... taatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcatatcattttaaatttgggataactggagctgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
tgaaatctttaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttcatttaattaagcaagcaatttatttgatgtcatatcattttaaatttgggataactggagctgaaatctttaataatggccagGGTTCGTATGCATTATGGCCATCCAGATGTTTTTGATAGAGTTTTCCATATAACACGAGGTGGTATCAGCAAGGCCTCTCGAGTTATCAACATTAGTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG