Sequence
atgc intronic sequence ATGC exonic sequence...ttctagcattgactgctatcaaccttgtgcaccattagacattacaacagaatctgttctactgcccattattagctgctgtcataaattttctttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os08g32920.1 (Oryza sativa), 3'ss of exon 8
-----ttctagcattgactgctatcaacct-tgtgcaccattagacattacaacagaatctgttctactgcccattattagctgctgtcataaattttctttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
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gtctagtttttttttgtcaccttttgacttctgaaagctatccatttttaagacatggtataattt-caatcatatatgagatgctatcctaa-----ttgtacagGGTGGAGGTTGGAAAGTTGTTGCAAGCTTTGAGGGGAAGTTCCCAACCAGGATCAAACAACTCCCTCTGGACAAGCATTTTGATATGAAAAATGTGAAAA
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os06g13820.2 (Oryza sativa), 3'ss of exon 8
ttctagcattgactgctatcaaccttgtgcaccattagacattacaacagaatctgttctactgcccattattagctgctgtcataaattttctttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
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-gttagtaaaga--gcttcaaacctacttagattttaatcataccttcctaaactgcacaagcaattacaataa--caatatactgtcttgtataaatagGGGTCTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGGAAATTCCCAGAGAGAATTAAACAGCTGCCACTGGACAGGCACTTTGACCTCAGCAATGTTAAAA
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 3'ss of exon 8
--ttctagcattgactgctatcaaccttgtgcac-cattagacattacaacagaatctgttctactgcccattattagctgctgtcataaattttctttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
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gttagtgataagctcaagtatggtctttatatataccttaattagtatgtgccaaa-tgaaatac--ctgattacaag--gctgttat----tcaatcaaaagGGGTCTGGTTGGAAAATTGTTGCAAGCTTTGAGGGGAAGTTTCCAGATAGGATCAAACAGCTTCCTTTGGACAGGCATTTTGATATTAACAATGTCAAAA
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G485898_T03 (Zea mays), 3'ss of exon 8
ttctagcattgactgctatcaaccttgtgcaccattagacattacaacagaatctgttctactgcccattattagctgctgtcataaattttctt-tgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
| | || | | | | | | || | || ||| | | | | | | | || | | | | ||| || ||||| |||||||||||||||||| |||||||| || || || || | |||||||| || |||||| | || || ||||||||||| || ||||||||||
-ttcaaaggtgtaaatttgcccctctctacgaagtttctcttttttcaagactttactgaatttaaaagaccttgcaattttacggtttatgcttatgtagGGTGCCGGTTGGAAAGTTGTTGCTAGTTTTGAGGGAAAGTTTCCAACTAGGATCAAACAACTACCTGTGGAAAAGCATTTTGATATGAAAAATGTCAAAA
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G157462_T01 (Zea mays), 3'ss of exon 8
ttctagcattga-ctgcta--tcaaccttg--tgcaccattagacattacaacagaatctgttctactgcccattattag--ctgctgtcataaattttctttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
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-gttagtaatgaacttacacttcaaatttggttatgtggttatacctcctag-atagttgataatgatgtcagtaacaaagtttactgtttttaatgtaat----agGGATCTGGATGGAAAATTGTTGCAAGTTTTGAAGGCAAGTTTCCAGACAGAATTAAACAGCTACCGTTGGACCGACATTTCGATCTCAACAACGTCAAAA
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 8
----ttcta-gcattgactgctatcaaccttgtgcaccattagacattacaacagaatctgttctactgcccattattagctgctgtcataaattttctttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
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gaagttagatactttgattttgggtatgggatttcaccaatgtactgtacaa--aaatccttttttttctgcatc--taaattctttcctttattt-ctttgcagGGTAATGGTTGGAAAGTTGTTGCCAGTTTTGAAGGGAATTTTCCTAACAGAATCAAGCAACTTCCTATTGACAGACACTTTGACATAAACAATGTCAAGA
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G40300.1 (Glycine max), 3'ss of exon 8
----ttcta-gcattgactgctatcaaccttgtgcaccattagacattacaacagaatctgttctactgcccattattagctgctgtcataaattttctttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
|| | | |||| | | | ||||| | ||| ||||| ||||| | | | ||| || | || || | |||| ||| |||||||| ||||||||||||||||| ||||||||||| ||||| || ||||| |||||||| || ||| | || | ||| ||||| |||||||||||||| |
gaagttagatactttgattttgggtatgggaatccaccaatgtacagtacaa--gaatcctattttttctgcatc--taaattctttcctttatttcctt-gcagGGTAATGGTTGGAAAGTTGTTGCTAGTTTTGAAGGGAATTTTCCTAACAGAATCAAGCAACTTCCTATCGACAGACACTTTGACATAAACAATGTCAAGA
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 8
ttctagcattgactgctatcaaccttgtgcaccattagacattacaacagaatctgttctactgcccattattagctgctgtcataaattttc------tttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
|| || | | | ||||| | || | | || || | || | | | | ||| || |||| | | ||||| || ||||||||||||||||||||||||||||| |||||||||||| | ||||||||||| || || |||| ||||||||| | |||||||| ||||
----gatataga--gtttttgtacttgtctgtgttcagtttatgggctgaagtcccttttggagcttggcaaatgtttttctcaaaactttttgattcttgttcagGGAAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGAAATTTCCCCAACCGTATCAAGCAGCTTCCATTGGATAGACATTTTGACCTGAACAATGTTAAAA
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 8
----ttctagcattgactgctatcaaccttgtgcaccattagacattacaacagaatctgttctactgcccattattagctg-ctgtcataaattttctttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
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aaggtttttgaattgcatgtc-tggtgattgtgcccgttcatgtgctg----aaggcctttttggatttcggtaaatatttttctctaataaaaatttggttcagGGAAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAATCGTATCAAAAAGCTTCCGTTGGATAGACATTTTGACTTGAACAATGTCAAAAMapped 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|30298644|gb|CB975438.1|CB975438EST: CTAC-ACATCTTGCACATGGTGAG GGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGG
genomic: CTACAACATCTTGCACATGGTGAGgtgagtaatt ... ttctttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacagaatctgttctactgcccattattagctgctgtcataaattttctttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
ttttctttgc CT-rich tract
tcataaattttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctagcattgactgctatcaaccttgtgcaccattagacattacaacagaatctgttctactgcccattattagctgctgtcataaattttctttgcagGGTAGCGGTTGGAAAGTTGTTGCAAGTTTTGAAGGCAATTTCCCCAACAGGATCAAGCAGCTACCTTTAGATAAACATTTTGATATAAACAATGTCAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - -tgactgc
- - - - - - - - -atcaacc
- - - - - - - - - - - - - -tgcacca
- - - - - - - - - - - - - - - - - - - - - - -aacagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actgccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgctg