Sequence
atgc intronic sequence ATGC exonic sequence...actttgttgggaagtgtggtttttttagtgtatgtattgttggatgaaatctgcgagattcctattttctttgcttctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 1
actttgttgggaagtgtggtttttttagtgtatgtattgttggatgaaatctgcgagattcctattttc-tttgcttctaatgtg---gtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
||| | |||| || | | | | |||| | | | | | || ||| | | ||| ||| | | ||||||| | || ||||||| || || ||||||||||||||||| ||||| |||||||| ||||| ||||| ||| | || || || || ||| ||||||| |||||||| | |
---ttgcccgaaagt-tgtgtcaaatgacttgagcattgcttttttcacaaggtggttttgatatcatgatatgcatcttaattacatgtgtttcttgtttcagTTGACATCATCTCTGCAATTGAGTTTGACAAATCCGGTGACCATCTTGCCACTGGAGATAGAGGTGGTCGTGTAGTTTTATTTGAAAGGACTGACTCCAG
upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 1
---actttgttgggaagtgtggtttttttagtg-tatgtattgttggatgaaatctgcgagattcctattttctttgcttctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
| || | || | | ||| || | || || | ||| | | | | || | | ||| | | ||| ||||| ||| ||||||| || || ||||||||||||||||||||||||||||| || ||||| || || || | || || || || ||| ||||||| ||||| ||| |
tatccatttcttagatgaaggatttcttcaatgctagacaagtacaaatgcacaattggttgcttctttgtgtgttgatctttatgc--tgttttgttt--cagTTGACATCATCTCTGCAATTGAGTTTGATAAATCTGGTGATCATCTTGCCACCGGAGACAGAGGAGGACGTGTTGTTTTATTTGAAAGGACAGATGCTCG
upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 2
actttgttgggaagtgtggtttttttagtgtatgtattgttggatgaaatctgcg-agattcctattttctttgct--tctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
|| | || | ||| || | | | | | | | | ||| | || || | | ||| | || |||| ||||||| || || ||||||||||| ||||| |||||||||||||| ||||| ||||| ||| || || || |||||| ||||||| ||||| |||
--ttccacacctgctctgctctttaataagtgaggaatttcacttcgtgtgagtgtagaatgtcgccttgcatgttgatttaacactcttctttgtttt-cagTTGACATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCG
upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 1
-----actttgttgggaagtgtggtt----tttttagtgtatgtattgttggatgaaatctgcgagattcctattttctttgcttctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
| || | | | ||| || | || | || |||||||| ||| || || |||||| || || | ||| ||| || | |||| ||||| |||||||| ||||| ||||| || |||||||| || |||||||||||||||||||| || || || ||||| |||||| |||| ||||||||
tgtgaagcctgccagtatgagtgattgacataattggattagctattgttgctgttaatgtgtaagtttcctaattattta---cccaat------tttatttcttcagTGGATATAATTTCTGCTATTGAATTTGACAAGTCTGGTGATCATCTTGCTACTGGTGATCGTGGTGGTCGAGTAGTTCTCTTTGAGCGGACAGATACAAA
upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 1
actttgttgggaagt-gtggtttttttagtgtatgtattgttggatgaaatctgcgagattcctattttctttgcttctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
| || | | || | | ||| || | || ||| | || | | | | |||| || | | | | | || | | |||| || || |||||||| ||||| ||||| || |||||||| || ||||||||||||||||| || || || |||||||| |||||||| || ||||||||
gcaaaagaggaatttcgtcggtgcttttgtatctgaattagtttgtggttcaagataatgtgaaagtttccttattattggccttat-tgtcttcctacagTGGACATAATTTCTGCTATTGAATTTGACAAGTCTGGTGATCATCTTGCTACTGGTGATCGAGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAA
upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 1
-----actttgttgggaagtgtggtt----tttttagtgtatgtattgttggatgaaatctgcgagattcctattttctttgcttctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
| | | | | ||| || | ||| || |||||||| | ||| || || |||||| || || | ||| ||| || | |||| ||||| |||||||| ||||| ||||| || |||||||| || |||||||||||||||||||| || || || ||||| ||||| |||| ||||||||
tgtggagtcttccagtattagtgattgacataattatattagctattgttgcagttaatgtgtaagtttcctaattattta---cccaat------tttatttcttcagTGGATATAATTTCTGCTATTGAATTTGACAAGTCTGGTGATCATCTTGCTACTGGTGATCGTGGTGGTCGAGTAGTTCTCTTTGAACGGACAGATACAAA
upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 1
actttgttgggaagtgtggtttttttagtgtatgtattgttggatgaaatctg----cgagat----tcctattttctttgcttctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
| ||| | | ||| || ||| | ||| || || | || | | ||| | | |||| | | | | | | | || || | |||| || || ||||| || ||||| ||||| || || ||||| || ||||||||||||||||| || || || |||||||| |||||||| || ||||||||
-------gcgaaagagggatttggttggtgcttttatatctgaattagattttggttcaggataatgtgaaagtttcctgattattgaccttat-tgtctttctacagTGGACATAATTTCAGCTATTGAATTTGACAAGTCCGGTGATCATCTTGCTACTGGTGATCGGGGTGGTCGAGTGGTTCTCTTTGAGAGAACAGATACAAA
upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 1
actttgttgggaagtgtggtttttttagtgtatgtattgttggatgaaatctgcga-gattcctattttctttgcttctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
| | | | | | ||| | | ||| | | | || | | | || | || | | | | || || || |||||||| || ||||| || || || ||||||||| ||| ||||| || || |||||||| ||||||||||| || ||||| ||||| ||||| ||||| ||
aatatactagct-gcacctcaaggttattatgtgtttagctcctacaatttagtggtgacttctgatgtaatgattctgtttgcacacatttcttccgcagTTGACATCATTTCAGCCATCGAATTTGATAAAAGTGGAGACCATCTCGCAACTGGTGACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAA
upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 3
---actttgttgggaagt-gtggtttttttagtgtatgtattgttggatgaaatctgcgagattcctattttctttgcttctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
| | || ||| || || ||| | | |||| ||| | | || |||| | | ||||||||| | |||||||||||| || || || ||||| |||||||| ||||| |||| ||||||||||| || ||||| || || || ||||| || ||||| || ||||| ||
tgaattagattcaatagtcgtttttcgttttgctgaatcgatgttattctgaattttag---ttgaaatttcttaaaaactgtagctggtgtttc-ctctgcagTTGATATAATCTCAGCGATTGAATTTGATAATTCTGGAAACCATCTTGCTACTGGGGACCGTGGAGGACGTGTTGTTCTTTTCGAGAGAACCGATACCAA
upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S138_11V6.1 (Physcomitrella patens), 3'ss of exon 1
actttgttgggaagtgtggtttttttagtgtatgtattgttggatgaaatc-tgcgagattcctattttc-tttgcttctaatgtggtgtt--tcattttg-cagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
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-----gcttaagaacgctaaagctgcaatgagtttgcttccagtaggttccatacgtatgtctgacttaaatctagttgtaactttctactcgttattatggcagTCGATATCATCTCGGCAATTGAGTTTGATAAATCTGGGGAACATTTAGCAACTGGGGATCGAGGAGGACGTGTTGTGTTGTTTGACAGAACGGATGGCGTMapped 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|161716360|gb|FC066871.1|FC066871EST: ATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAG TTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTA
genomic: ATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAGgtattgttgg ... cattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTA
EST:
gi|161719206|gb|FC066075.1|FC066075EST: ATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAG TTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTA
genomic: ATTCTCTCAGGTATTCGGCGAGCGGGCGGCCGGCGAGGAAGTGCAGGAAGgtattgttgg ... cattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaatctgcgagattcctattttctttgcttctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
ttctaat putative branch site (score: 2)
tttcatttt putative PPT
tattttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actttgttgggaagtgtggtttttttagtgtatgtattgttggatgaaatctgcgagattcctattttctttgcttctaatgtggtgtttcattttgcagTTGATATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- -ttgttgg
- - tgttggg
- - - - - - - - - - - - - -gtgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtggtg