Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g50320.2 (Oryza sativa), 3'ss of exon 6
gtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
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-------------------------------------gtaa--catcctttactgttgctttcggataatcttcac-tgttctgtacgcaaaaaagttgacccat-gctaatctctaaccatggcacacttagGAGGAAAGAAAAATTCTTGACCGTGAGCTTGCGCGGGCAAAAGTTACAGCAAACAGAGTTGCTGTTGTAGTTGCAAATGAGTGGAAAGATGCTAATGACA
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G017525_T01 (Zea mays), 3'ss of exon 2
gtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
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---------------------gtaatacatgaatcctg-atgtccttggaaatgcat---tatgcgttt---taggatat-ctacttgagc-accatgactaatgcaagttttacaacgtttcctattcttagGAGGAAATGAAAACTCTTGATCGTGAGCTAGCTCGTGCAAAGGTTTCAGCAAATAGGGTTGCAGTAGTGGTGGCAAATGAGTGGAAAGATGGCGATGATA
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G26540.1 (Glycine max), 3'ss of exon 6
gtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
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gtaatgtgtgaaaagtcttcagca--tgttcaaactcacatttgctttattcttgattgtactgcctctagtta--agatcatatttatttttgcacggtttatttgacattcttt---------------agGAGGAAAGAAAGACTCTAGACAGGGAGTTGGCTCGTGCCAAGGTAACAGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATA
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G09390.1 (Glycine max), 3'ss of exon 6
gtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggctt-atatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
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gtaacttgttaaaagtcttcagca--tgttcaa-actcccatttgctttattcttcattatattgactctagtta--agatcatatttatttttgcatggtttatttgacattcttt---------------agGAAGAAAGAAAAACTCTAGACAGGGAGTTGGCCCGTGCCAAGGTAACAGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCCAATGATA
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G05100.1 (Glycine max), 3'ss of exon 6
gtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
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gtaatgtgtcacacttac-caac-----tttactcttctaatttgttt---actca-atcattacattgac----cata-gctaaaagcatctt--ttgttgcatgatttgttttgatactata------tagGAAGAAAGAAAAACTCTTGACCGGGAGTTAGCTCGTGCCAAGGTAACAGCAAACAGAGTAGCTGTAGTGGTTGCAAATGAATGGAAAGATGCTAATGACA
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G34560.1 (Glycine max), 3'ss of exon 6
gtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
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gtaatgtgttaaatttac-caac-----tttactcttctagtttgttt---actca-attattaca-ctgatccacctaa---aagcatctta--attgttgcatgatttgttttgacactata------tagGAAGAAAGAAAAACTCTTGACCGAGAGTTAGCTCGTGCCAAGGTAACAGCAAACAGAGTAGCTGTAGTGGTTGCAAATGAATGGAAAGATGCTAATGACA
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G68060.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
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-----------------------------------------gtaagttaa----tacatttccgaaaaaaga-agtatagaatctttactcaactgatgaaggaatatttcttgctctacttttg-----cagGAAGAACGAAAAACTCTTGACCGGGAACTTGCGCGTGCAAAGGTTACAGCAAACAGAGTTGCGACAGTGGTTGCAAATGAATGGAAAGATGGTAATGATA
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G14840.2 (Arabidopsis thaliana), 3'ss of exon 6
gtaatgtgccatttttaaacaataaatattgaacattgc-aagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttct-atcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
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---------------------gtatatttcatatgcttctatagtacctcaataacttactgtttt-tcttgttagtgttttggtctcgtactgatcgtaattgtggtgttttgtgttttcctt---------agGAAGAGAGGAAAATCCTTGAACGGGAATTGGCCCGTGCGAAGGTAAATGCAAACAGAGTTGCTACTGTTGTAGCTAACGAATGGAAAGATTCTAATGACA
upper sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G24764.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
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--------------------------------gtaactaaacacacttca----taaagtctctaatttc-ttgtcacaa--caattgc-ctactgatgtaggaataattcttgtttttgtct-----ttcagGAAGAGCGGAAAACTCTTGACCGGGAGCTTGCACGTGCAAAGGTTACAGCAAACAGAGTTGCCACTGTGGTAGCAAATGAGTGGAAAGATGGTAATGATAMapped 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
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
ttgtctttccttttct CT-rich tract
ttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtgccatttttaaacaataaatattgaacattgcaagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttctatcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG