Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgatatcctgtttttgatgtcatcattaaaacatttgggttttatttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 3'ss of exon 9
gtaagtgatatcctgtttttgatgtcatcattaaaacatttgggttttatttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
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--------------------------gtacgtagaatagc-gtatattcttatacagaaatttttaaa-----gatccagaactagcttgtcat------cagaacattgaactttgttgtg-tttgcagGATGAACTTTTTGAGTAATATCCTACGGGAAGAGGGTGGCTTTGAGTACAAGAAGGCTATTGTTGATTCAATTATCATACTCATTAGAGATATTCCTGAT
upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 3'ss of exon 9
gtaagtgatatcctgtttttgatgtcatcattaaaacatttgggttttatttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
||| | || || | | | |||||| || | || | | ||| | | |||| || | | ||| ||| | | |||| || | | |||||||||||||| || |||| | | || |||||||| || ||||||||||||||||| || |||||||| || || | || || || || || || |||
-------gtatgtaaatcttaattcggtgttgatgacatttacattcttttagtgccgtatgttttgactatcagt------tgcatttg--gtgtccaatgctct---tcatttttttttcttctatagGATGAACTTCTTGAGTAACAGTTTGAGAGAAGAAGGGGGCTTTGAGTACAAAAAGGCCATCGTTGATTCCATAGTAACTCTTATCAGTGAGATACCAGAT
upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G178618_T01 (Zea mays), 3'ss of exon 9
gtaagtgatatcctgtttttgatgtcatcattaaaacatttgggttttatttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
| | || || | | | | |||| || | | |||| ||||| | | |||| | || | ||| | || || || ||||||||||||||| || || ||||| ||||||| || ||||| |||||||| || || || ||||||||||| | || ||||| |||||||||||||||
---------------------gtatgtatatagaagcgtgtttgcactattcttgt------------taaacatcgtaaactacctttttcatctataa-gcattaattttcatttatctg--ttccagGATGAACTTCTTGAGTAATATTCTACGGGAAGAGGGAGGATTCGAGTACAAGAAAGCCATAGTTGATTCAATTATTATACTCATTAGAGATATTCCTGAT
upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G036034_T01 (Zea mays), 3'ss of exon 9
gtaagtgatatcctgtttttgatgtcatcattaaaacatttgggttttatttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
| | || || ||| || || || | || |||||| | |||| | | |||| | || | ||| || || ||| |||||||||||||| || || ||||| ||||||| |||||||| ||||| || || || || ||||||||||| | || ||||| |||||||||||||||
---------------------gtatgtatatagaagcat----gtcttcttgcgctagtcttgttaaat----atcataaactacctttttcatctataa-gcattaatttccatttatctgtttt--agGATGAACTTCTTGAGTAATATTCTACGGGAAGAGGGTGGATTCGAGTATAAGAAAGCCATAGTTGATTCAATTATTATACTCATTAGAGATATTCCTGAT
upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 9
------gtaagt-gatatcctgtttttgatgtcat--cattaaaacatttgggttttatttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
|| || || || | | | | | || | | | || | ||| |||| |||| ||| || ||||| || |||| | | || ||| | | ||||||||||||| ||| |||| ||||||||||||||||||||||| ||||| ||||| || || ||||| |||||||| ||||| || || |||||||| ||||||
gtgagtatatgtcaatgtcattctataggtttctttcccccagaagttacatatttcatttgaatgtttttcctagatgaatggtctaaattactggtttc------------------ttttctgttattattttcagGATGAATTTCCTAAGTAACATTCTTAGGGAAGAAGGTGGCTTTGATTACAAGAAAGCAATTGTAGATTCAATTGTGATTCTTATTAGAGATATCCCTGAT
upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 9
gtaagtgatatcctgtttttgatgtcatcattaaaacatttgggttttat-ttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
||| | || | | || | | | || | ||| || | || | | | | || | ||| | | || | | | | ||||||||||||||||| | || || ||||||||||||||||| || ||||| ||||| ||||| ||||| |||||||| ||||| ||||| |||||||| ||||||
-------gtatgtgtccctgaatatagtttttgactc-cccacatgccatatgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtat-------tctgctattattttcagGATGAACTTCCTGAGTAATATTCTTAGGGAAGAAGGGGGTTTTGATTACAAGAAGGCAATTGTAGATTCAATTGTGATTCTCATTAGAGATATCCCTGAT
upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G12610.2 (Glycine max), 3'ss of exon 9
----gtaagtgatatcctgtttttgatgtcatcattaaaacatttgggttttatttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
||| | || || | | | | | || | ||| |||| |||| ||| || ||||| || |||| | | || ||| | | ||||||||||||| ||| |||| ||||||||||||||||||||||| ||||| ||||| || || |||| |||||||| ||||| || || |||||||| ||||||
gtgagtacaagtcattctataggtttctttccccccagaagttacatatttcatttgaatgtttttcctagatgaatggtctaaattactggtttc------------------ttttctgttattattttcagGATGAATTTCCTAAGTAACATTCTTAGGGAAGAAGGTGGCTTTGATTACAAGAAAGCAGTTGTAGATTCAATTGTGATTCTTATTAGAGATATCCCTGAT
upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G01470.1 (Glycine max), 3'ss of exon 9
gtaagtgatatcctgtttttgatgtcatcattaaaacatt-tgggttttatttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
||| | || | | || | | | | |||| || | ||| || | || ||||||| | || | | || | | | ||||||||||||| ||| | || || ||||||||||| |||||||| ||||| ||||| ||||| ||||| |||||||| ||||| ||||| |||||||| ||| ||
-------gtatgtgtccctgaatatagtttttgactccccatacgccttatgtt-gcatatttatttcctaaa------ggaatgttttatgctgatggtttgta--------ttctgctattattttcagGATGAATTTCCTGAGTAATATTCTTAGGGAGGAAGGTGGTTTTGATTACAAGAAGGCAATTGTAGATTCAATTGTGATTCTCATTAGAGATATCCCTAAT
upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G34450.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagtgatatcctgtttttgatgtcatcattaaaacatttgggttttatttttatgtcttttttaaatga------acagtgtaaaatgtttccgtcatgtgaaata-gaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
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gtaagtaaa-----gttttagggtttgttatttgtagttttggtctcgagcatttctatttttttgaatgattaaatatgttatggtatctttttagcatttggcttatgattgatctatcaccttttcatttgtagGATGACCTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTATAAAAGAGCAATAGTAGATTCTATTGTGACCATTATCAGAGATATTCCGGATMapped 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|110359101|gb|EC920028.1|EC920028EST: GAAGCCATCAGATCATTGTGCTTGAAGTTTCCTTTGAAGTATAGAGCCTT GATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGCTTTGAGTACAA
genomic: GAAGCCATCAGATCATTGTGCTTGAAGTTTCCTTTGAAGTATAGAGCCTTgtaagtgata ... tgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
gaataac putative branch site (score: 2)
taaccctttttccctt CT-rich tract
aaatagaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgatatcctgtttttgatgtcatcattaaaacatttgggttttatttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA