Sequence
atgc intronic sequence ATGC exonic sequenceACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os02g50320.2 (Oryza sativa), 5'ss of exon 6
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
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GCTTAGTCAAACTGTAAGAGAGCTGGAAGAGGCTGTTCTTGCTGGTGGTGCAGCTGCTAATGCTGTCAGAGATTACCAGCGGAAAGTTCAAGAAATGAATgtaacatccttt------actgttgctttcggata------atcttcactgttctgtacgcaaaaa---agttgacccatgcta-atctctaaccatggcacacttag-------------------------
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os12g44340.1 (Oryza sativa), 5'ss of exon 6
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
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GCTCACTCAGACTGTCAGAGAGCTCGAAGAAGCTGTTCTTGCTGGAGGTGCAGCTGCAAATGCTGTGAGAGACTATCAGCGCAAAGTCCAGGAGATGAATgtaatgcatgatgccctgagcacacgttcctgatgtt------tattctac-ctaatagaatggtaattgat-gccaatttacacttatgctgatgtcag---------------------------------
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G017525_T01 (Zea mays), 5'ss of exon 2
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggct-tatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
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GCTCACGCAGACTGTCAGAGAGCTAGAAGAATCTGTTCTTGCTGGTGGTGCAGCCGCAAATGCTGTCAGAGACTACCAGCGGAAAGTTCAGGAGATGAATgtaatacatgaatcctga----tgtccttggaaatgcattatgcgttttaggatatctacttgagcacca---tgactaatgcaa-gttttacaacgtttcctattcttag-----------------------
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM5G832989_T01 (Zea mays), 5'ss of exon 6
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttca-ggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
|| | |||||||| || ||| | ||||||| ||||||| |||||||||||||| |||| || || ||||||||||| ||||||||||| |||||||||| | | || ||| | | | | | | | ||| | | | || | | | || | | || | | | |
GCTGAGTCAAACTGTGAGAGAGTTGGAAGAGGATGTTCTGCAAGGTGGTGCAGCTGCCAATGTCGTTAGGGATTACCAACGAAAAGTTCAAGAAATGAATgtaacctactatctttcatctcttagggtctgtttggaaaggaagttttatgatccaaatctctaagattctttatagaaagt--tgaactaaagcctaaaa--------------------------------
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA05G34560.1 (Glycine max), 5'ss of exon 6
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
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GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCCAATGCTGTGAGAGATTATCAACGGAAAGTTCAAGAAATGAATgtaatgtgttaaatttac-caac-----tttactcttctagtttgttt---actca-attattaca-ctgatccacctaa---aagcatctta--attgttgcatgatttgttttgacactatatag------
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA08G05100.1 (Glycine max), 5'ss of exon 6
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
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GCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCAAATGCTGTGAGAGATTATCAACGGAAATTTCAAGAAATGAATgtaatgtgtcacacttac-caac-----tttactcttctaatttgttt---actca-atcattacattgac----catagctaaaagcatcttttgttgcatgatttgttttgatactatatag---------
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 6
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
|| ||||||||||| || ||||| ||||||||||| || || ||||||||||| |||||||| || || ||||| || |||||||||||||| |||||||||||||| | | || | | || || | || | ||| | || | ||| ||||||| | || || | || | || ||| | ||| | ||| ||
GCTCACCCAAACTGTTAGAGAGCTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCCGCAAATGCAGTGAGGGATTATCAGCGGAAAGTTCAAGAAATGAATgtaatgtgtgaaaagtcttcagca--tgttcaaactcacatttgctttattcttgattgtactgcctctagtta--agatcatatttatttttgcacggtttatttgacattctttag---------------
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA02G09390.1 (Glycine max), 5'ss of exon 6
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggctt-atatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
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GCTCACCCAAACTGTTAGAGAACTAGAAGAGGCTGTCCTTGCAGGTGGTGCAGCTGCAAATGCAGTGAGGGATTATCAGCGGAAAGTTCAAGAAATGAATgtaacttgttaaaagtcttcagca--tgttcaa-actcccatttgctttattcttcattatattgactctagtta--agatcatatttatttttgcatggtttatttgacattctttag---------------
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT2G01750.1 (Arabidopsis thaliana), 5'ss of exon 7
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
| ||||| || ||| ||||||||||||| |||||||| ||||||||| ||||||||||||| || ||||||||||| ||||| ||||||| ||||||||||| ||||| | | | | | | | || | || ||| | ||| | || | | |||| | ||||| | | | | | |||| || |
GTTTACCCAGACCGTACGGGAGCTTGAAGAAGCTGTTCTTGCTGGTGGTACAGCTGCAAATGCAGTGAGAGATTACCAGAGGAAATTTCAAGAAATGAATgtaataa-------ttaaattacacgtttagtgcctcattagcctatt---gct---acccttgtacttaa--aattcaattcctgtgcta-atcatagctatggccattaatcctttcattag---------
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT1G24764.1 (Arabidopsis thaliana), 5'ss of exon 6
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
|| || || || ||| | ||||| |||||||||||||| || |||||||| ||||||||||| || || |||||||| |||||| |||||||||||||||||| || || || || | | || || | |||| || || | || | || ||| | ||| || | || ||
GCTTACTCAGACAGTACGAGAGCTAGAAGAGGCTGTTCTTGCAGGTGGTGCTGCTGCAAATGCCGTGAGGGATTACCAGCGGAAATTTCAAGAGATGAATgtaactaaacacactt---cataaagtctctaa--tttcttgtcacaacaattgcctactgatgta-------ggaataattcttgt-ttttgtctttcag--------------------------------
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT1G68060.1 (Arabidopsis thaliana), 5'ss of exon 6
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccattttt---aaacaataaatattgaacattg--caagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
|| || || |||||| |||| || |||||||| ||||| ||||||||||| ||||||||||| || || |||||||| ||||| ||||||||||||| |||| | | ||| ||| || || ||| ||| || | | ||| ||| || |||| || |||
GCTTACTCAGACTGTACGGGAACTGGAAGAGGCCGTTCTTGCTGGTGGTGCTGCTGCAAATGCCGTGAGGGATTACCAGCGGAAGTTTCAAGAGATGAACgtaagttaatacatttccgaaaaaagaagtatagaatctttactcaactgatgaaggaatat-ttcttgctctacttttgcag-------------------------------------------------------
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT1G14840.2 (Arabidopsis thaliana), 5'ss of exon 6
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgta-atgtgccatttttaaacaataaat--attgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
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GCTTATGCAGAGTGTTCGGGAATTAGAAGAAGCTGTTCTTGCTGGTGGTGCAGCCGCAAACGCAGTGAGAGATTACCAAAGGAAATTCCAAGAAATGAATgtatatttcatatgcttctatagtacctcaataacttactgtttttcttgttagtgttttggtctcgta-ctgatcgtaat-tgtggtgttttgtgttttccttag------------------------------Mapped 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|161719957|gb|FC067712.1|FC067712EST: CAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAAT GAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCA
genomic: CAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgcc ... ggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTGGTGGTGCAGCTGCAAATGCTGTCAGAGATTACCAACGGAAAGTTCAAGAGATGAATgtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcag
- - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG