Sequence
atgc intronic sequence ATGC exonic sequence...aaccttggagtagttgtatcaccttcatcggcatttctaggtaatggaattttagtccagatatttttttggctaataagttgcttttctcatcttgaagGTCACTACATGAGTGCATCAGCGCAAATGTGGGCCAGCACTCACAATGATACTCTCAAAGAGAAAATGTCTGCAGTGGTTTCTGCTCTTGCAACCTGTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G03770.1 (Glycine max), 3'ss of exon 1
aaccttgga--gtagttgtatcaccttcatcggcatttctaggtaatggaattttagtccagatatttttttggctaataagttgcttttctcatcttgaagGTCACTACATGAGTGCATCAGCGCAAATGTGGGCCAGCACTCACAATGATACTCTCAAAGAGAAAATGTCTGCAGTGGTTTCTGCTCTTGCAACCTGTCA
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agtttttacttgtaaatagcttgctcctggctgcaactttaagcctttgcaactcacttttcatggttaatta--caattgcttgcttgtgacactttaaagGTCACTACTTGAGTGCATCAGCATTAATGTGGGCCAGCACACATAATGATAGCCTGAAGAAGAAAATGTCTGCTCTTGTTGCCAATCTCTCTATCTGCCA
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 2
-aaccttggagtagttgtatcaccttcatcggca-tttctaggtaatggaattttagtccagatatttttttggctaataagttgcttttctcatcttgaagGTCACTACATGAGTGCATCAGCGCAAATGTGGGCCAGCACTCACAATGATACTCTCAAAGAGAAAATGTCTGCAGTGGTTTCTGCTCTTGCAACCTGTCA
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cttgcatctaacaagcacactaccccttcctgcaacttttagcctctgcaattcacttttcaatgttaattta--tgattgtttgtttttgacgctgtgaagGGCATTACTTGAGTGCATCAGCTCTAATGTGGGCCATCACACAGAATGATACCCTGAAACAGAAAATGTCATACCTCGTTGCTGGTCTGTCTGACTGTCA
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G14020.1 (Glycine max), 3'ss of exon 1
-aaccttggagtagttgtatcaccttcatcggcatttctaggtaatggaattttagtccagatatttttttggctaataagttgcttttctcatcttgaagGTCACTACATGAGTGCATCAGCGCAAATGTGGGCCAGCACTCACAATGATACTCTCAAAGAGAAAATGTCTGCAGTGGTTTCTGCTCTTGCAACCTGTCA
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ttgtatcttaccaagcacactacccctgcctgcaaatttgagcccttgcaattcacttttcaaagttaattta-tgattttttgtttttgacaccgtgaagGGCATTACTTGAGTGCATCAGCTCTAATGTGGGCCAGCACACAGAATGATACCCTGAAGCAGAAAATGTCATCTCTTGTTGCTGGTCTGTCTGCCTGTCA
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 1
-aaccttggagtagttgtatcaccttcatcggcat-ttctaggtaatggaattttagtccagatatttttttggctaataagttgcttttctcatcttgaagGTCACTACATGAGTGCATCAGCGCAAATGTGGGCCAGCACTCACAATGATACTCTCAAAGAGAAAATGTCTGCAGTGGTTTCTGCTCTTGCAACCTGTCA
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ttgtatcttaccaagcacactacccttacctgcaaatttgagaccctgcaattcacttttcaaagttaattta--tgattgtttgtttttgacactgtgaagGGCATTACTTGAGCGCATCAGCTCTAATGTGGGCCAGCACACAGAATGATACCCTGAAGCAGAAAATGTCATCTCTTGTTGCTGGTCTGTCTGCCTGTCA
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G05970.1 (Glycine max), 3'ss of exon 4
-----------------------------------------------------------------------------------aaccttgga----gtagttgtatcaccttcatcggca-tttctaggtaatggaattttagtccagatatttttttggctaataagttgcttttctcatcttgaagGTCACTACATGAGTGCATCAGCGCAAATGTGGGCCAGCACTCACAATGATACTCTCAAAGAGAAAATGTCTGCAGTGGTTTCTGCTCTTGCAACCTGTCA
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gttcgtaacttctgaaatatccctcacacactgatgatatgttgacaccctaatgcacgtttggttctccctgggattttggtgatcttgcatctaacaaacacactacccctgcctgcaacttttagcctctgcaattcacttttcaaagttcattta--tgattgtttgtttttgatgctgtgaagGGCATTACTTGAGCGCATCAGCTCTAATGTGGGCCATCACACAGAATGATACCCTAAAACAGAAAATGTCATCCCTT-----------------------
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G12950.1 (Arabidopsis thaliana), 3'ss of exon 1
----aaccttggagtagttgtatcaccttcatcggcatttctaggtaatggaattttagtccagatatttttttggctaataag--ttgcttttctcatcttgaagGTCACTACATGAGTGCATCAGCGCAAATGTGGGCCAGCACTCACAATGATACTCTCAAAGAGAAAATGTCTGCAGTGGTTTCTGCTCTTGCAACCTGTCA
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atagacccttaaaaggattata-cactttagattgcataggcccttaaaggaattacctttta-----ctagatggctcataaagtctgtctatttgtttttgaagGTCACTATTTGAGTGCAACAGCTTATATGTGGGCTAGTACTCATAATGATACTCTCAAGGAGAAAATGTCAGCTCTTGTCTCAGCTCTATCGGAATGCCAMapped 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|161721828|gb|FC070507.1|FC070507EST: CTATGGAGGTTGGGAGGCCCCTAATGTTGAACTTCGGGGTCATTTTGTAG GTCACTACATGAGTGCATCAGCGCAAATGTGGGCCAGCACTCACAATGATA
genomic: CTATGGAGGTTGGGAGGCCCCTAATGTTGAACTTCGGGGTCATTTTGTAGgtcagttttg ... catcttgaagGTCACTACATGAGTGCATCAGCGCAAATGTGGGCCAGCACTCACAATGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaattttagtccagatatttttttggctaataagttgcttttctcatcttgaagGTCACTACATGAGTGCATCAGCGCAAATGTGGGCCAGCACTCACAATGATACTCTCAAAGAGAAAATGTCTGCAGTGGTTTCTGCTCTTGCAACCTGTCA
ggctaat putative branch site (score: 3)
ttgcttttctcatctt putative PPT
agatattttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaccttggagtagttgtatcaccttcatcggcatttctaggtaatggaattttagtccagatatttttttggctaataagttgcttttctcatcttgaagGTCACTACATGAGTGCATCAGCGCAAATGTGGGCCAGCACTCACAATGATACTCTCAAAGAGAAAATGTCTGCAGTGGTTTCTGCTCTTGCAACCTGTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- ccttgga
- - - - - - - - - -caccttc
- - - - - - - - - - - - - - - gcatttc
- - - - - - - - - - - - - - - - - - - - - aatggaa