Sequence
atgc intronic sequence ATGC exonic sequence...accataatgcataaatgtacttcaactttggttgctctgatatagagtccttgtctagttatttataaatttgatggatctggtttttatttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGTCCAAGTTGCAAGTTTGACCACCCTATGGGAATCTTCGCATACAATCTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os12g21700.1 (Oryza sativa), 3'ss of exon 6
----accataatgcataaatgtacttcaactttggttgctctgatatagagtccttgtctagttatttataaatttgatggatctggtttttatttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGTCCAAGTTGCAAGTTTGACCACCCTATGGGAATCTTCGCATACA-ATCTGT
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agtagttccaataaattataatacttgagtaatctgtaatttggtactttttgcctatcgggggat--gctaccctaac--atctatctctttcctgctaacagGGAGAACCTGTCTGCACATTCTATTCTCGTTACGGGATCTGCAAGTTTGGTCCTAATTGCAAATTTGACCATCCTATGGGAACCCTTATGTATGGAAGTG-
upper sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G36140.1 (Glycine max), 3'ss of exon 6
accataatgcataaatgtacttcaactttg-gttgctctgatatagagtcct-tgtctagttatttataaatttgatggatctggtttttatttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGTCCAAGTTGCAAGTTTGACCACCCTATGGGAATCTTCGCATACAATCTGT
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-caaatatttgtgggttttttttctcttcacgttagattggtcttgtgtgttgtgattgaattagtgcaa-tctgatagaggcagtgtcccatttcttacagGGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTGGCCCAAGTTGCAAGTTTGACCACCCAATGGAAATTTTCTCTTACAATATCA
upper sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G31370.2 (Glycine max), 3'ss of exon 5
accataatgcataaatgtacttcaactttggttgctctgatata--gagtccttgtctagttatttataaatttgatggatctggtttttatttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGTCCAAGTTGCAAGTTTGACCACCCTATGGGAATCTTCGCATACAATCTGT
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acaaatatttgtgttttttttttttttcacgttagtttggtcttgtgagttgtgattgaattagtgc--aatctgatagaggcagtgtcccatttcttacagGGAGAACCTTTGTGTGTCTTCTATTCTCGTTATGGCATATGCAAATTTGGCCCAAGTTGCAAGTTTGACCACCCAATGGAAATTTTCTCTCATAATATCT
upper sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G47660.1 (Glycine max), 3'ss of exon 6
accataatgcataaatgtacttcaactttgg--ttgctctgatatagagtccttgtctagttatttataaatttgatggatctggtttttatttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGTCCAAGTTGCAAGTTTGACCACCCTATGGGAATCTTCGCATACAATCTGT-
|| | | ||| ||| | |||| ||| | | ||||| | | || | | || || | | | || | ||||| | ||||||||| || |||| | || ||||| |||||||| || ||||||||||||||||| ||||||||||| ||||| |||||| ||||| | || || |||
--gatga-gaatatatgcaattcagtattgtcttcacactgatttgatatttttattgatttcggtacatgctaatagaggttgtgtcccattttcctacaggGAGAGCCCCTGTGTGTGTTCTATTCACGTTATGGCATATGCAAATTTGGTCCAAGCTGCAAGTTTGATCACCCAATGGGAGTCTTCACCTATAACATGTC
upper sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G38650.2 (Glycine max), 3'ss of exon 6
accataatgcataaatgtacttcaactttggttgctctgatatagagtccttg-tctagttatttataaatttgatggatctggt-ttttatttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGTCCAAGTTGCAAGTTTGACCACCCTATGGGAATCTTCGCATACAATCTGT
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--agggagatgagaatatatgcaattgtttattacagtgttctcttcacattgattttggtacatgctaatagaggagaggttgtgtcccattttcctacagGGAGAGCCCCTGTGTGTGTTCTATTCACGTTACGGCATATGCAAATTTGGTCCAAGTTGCAAGTTTGATCACCCAATGGGAGTCTTCACCTATAACATAT
upper sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G16540.2 (Arabidopsis thaliana), 3'ss of exon 5
accataatgcataaatgtacttcaactt--tggttgctctgatatagagtccttgtctagttatttata-aatttgatggat-ctggtttttatttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGTCCAAGTTGCAAGTTTGACCACCCTATGGGAATCTTCGCATACAATCTGT
| | | | | | || | | | | | || ||||| | |||| |||| | || || ||| | ||| ||||||||||||| ||||| | || |||||||| |||||||||||||| ||||||||||| || || ||||| ||||| ||| || ||||| | |||||
gttggccttcctttacgcccggtaagctaataaaagacttcagattctttcctttatagtctcattatgtggtttggtaaattcttgttgctggtttgaaacagGGAGAACCACTGTGCGTGTTCTATTCTCGGTATGGGATCTGCAAGTTTGGTCCAAGCTGTAAATTTGATCACCCGATGCGAGTCTTCACTTACAACAACA
upper sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G16540.3 (Arabidopsis thaliana), 3'ss of exon 4
accataatgcataaatgtacttcaactttggttgctctgatatagagtccttgtctagttatttataaatttgatggatctggtttttatttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGTCCAAGTTGCAAGTTTGACCACCCTATGGGAATCTTCGCATACAATCTGT
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---gtaagctaataaaagacttcagattc--tttcctt--tatagtctcattatgtggtt--tggtaaatt--------cttgttgctggtttgaaacagGGAGAACCACTGTGCGTGTTCTATTCTCGGTATGGGATCTGCAAGTTTGGTCCAAGCTGTAAATTTGATCACCCGATGCGAGTCTTCACTTACAACAACAMapped 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|156736717|gb|EV240838.1|EV240838EST: TCCCTACTCCAGATTGTGTTTTGAGTCCCATAGGCCTCCCTTTACGTCCG GGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGT
genomic: TCCCTACTCCGGATTGTGTTTTGAGTCCCATAGGCCTCCCTTTACGTCCGgtgagttgcc ... ttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtccttgtctagttatttataaatttgatggatctggtttttatttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGTCCAAGTTGCAAGTTTGACCACCCTATGGGAATCTTCGCATACAATCTGT
atttgat putative branch site (score: 5)
tttttatttttc putative PPT
ttgtctagttatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accataatgcataaatgtacttcaactttggttgctctgatatagagtccttgtctagttatttataaatttgatggatctggtttttatttttcaacagGGAGAACCTTTGTGCATTTTTTATTCTCGTTATGGGATCTGCAAATTTGGTCCAAGTTGCAAGTTTGACCACCCTATGGGAATCTTCGCATACAATCTGT
accataa
- - - - - - - - - -cttcaac
- - - - - - - - - - - - - - tggttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgga