Sequence
atgc intronic sequence ATGC exonic sequence...atggtcatagtatatccacatttgatatattttttcttgtttttttagcttccttccatttcagcattacatcacaaaatatttttatttttgcttgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATTGGATCCCAAATGCGGTATGAAGTCACTGGTGATCCACTTTACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g10190.1 (Oryza sativa), 3'ss of exon 4
---atggtcatagtatat--ccacatttgatatattttttcttgtttttttagcttccttccatttcagcattacatcacaaaatatttttatttttgcttgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATTGGATCCCAAATGCGGTATGAAGTCACTGGTGATCCACTTTACAAG
||| || | | || |||| | | | || || || | | || | | | ||| | | | || | |||| || || || || || || ||| |||||||||| || |||||||||||||| | || ||| | |||||||| |||||||||| |||||||||
cttttggcttgggtgtctgattccagaggatacaagaatagtagtattcctattgcagtaatgtctc-----tgactgataaatcttgagtgtgcttcaattcagGCCGACAGTATTTCAGGCTTCCATTCCAATACACACATTCCAGTTGTTATTGGTGCACAGATGAGATATGAAGTTACTGGTGATCTTCTTTACAAG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os06g41020.1 (Oryza sativa), 3'ss of exon 4
-------------------------atggtcatagtatatccacatttgatatattttttc-ttgtttttttagcttccttccatttcagc--------attacatcacaaaatattttt----atttttgct-tgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATTGGATCCCAAATGCGGTATGAAGTCACTGGTGATCCACTTTACAAG
|| || | |||| || | ||| | || | |||| | | | | | |||| | | | ||| ||||| | || |||| | | ||||||| || | || ||||||||||| |||||||| || || ||||| || || |||||| | |||||||| ||||||||||| |||||||||
gtctgaagatcttaattcccctatggcactctatgttctcctacatgctattcactttgtaattagtaatttattgtacaactaatccagctagaactcgtaatctgacagaatataactcgtaatctttgatgttcagGCTGACAGTCTTTCGGGTTTTCATGCAAATACACACATTCCTGTTGTCATCGGTGGGCAAATGAGATATGAAGTTACTGGTGATCCTCTTTACAAG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G03770.1 (Glycine max), 3'ss of exon 4
-atggtcatagtatatccacatttgatatattttttcttgtttttttagcttccttccatttcagcattacatcacaaaatatttttatttttgcttgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATTGGATCCCAAATGCGGTATGAAGTCACTGGTGATCCACTTTACAAG
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tcaagtatttggatgttga-acttcaggcatttatttctagtttagaaatagtatttaatttttcaacaaagcctgagaattctaaaattctatgatgtagGCGAATGATATAGCTCATTTTCATGCTAATACACATATCCCAGTGATTGTTGGATCTCAAATGCGGTATGAAGTCACTGGTGATCCACTTTATAAG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 5
--atggtcatagtatatccacatttgatatattttttcttgtttttttagcttccttccatttcagcattacatcacaaaatatttttatttttgcttgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATTGGATCCCAAATGCGGTATGAAGTCACTGGTGATCCACTTTACAAG
| || | | ||| | ||| || || | | | | || || || | | | | | | | || | |||| | |||||||| || |||| ||| ||||||||| ||||||||||||||||||||| ||||||| ||||||||||||||| |||| || ||||||||||| ||
taaatgttgaact-tatgcctttttaatctagtcaaaaaattgtatctaattttaagtcaaggccaaagagt-taatattaaaattctcttttctcatgtagGCTAATGACATAGCTGATTTTCATGCTAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTTTATCAG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G14020.1 (Glycine max), 3'ss of exon 4
atggtcatagtatatccacatttgatatattttttcttgtttttttagcttccttccatttcagcattacatcacaaaat---------atttttatttttgcttgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATTGGATCCCAAATGCGGTATGAAGTCACTGGTGATCCACTTTACAAG
| || | | | || | |||| | | || | | | | |||| | | || | | | | || | |||| | |||||||| || |||| || ||||||||||||||||||||||||||||||| ||||||| ||||||||||||||| |||| || |||||||| || |||
--------tgaatgttga-acttagggtcttttattctattgtagaaatcttatctaattttaagtcaaggtccaagagttaattttaaaattctcttttctcatgtagGCTAATGACATAGCTAATTTTCATGCCAATACACATATCCCAGTTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTGTATAAG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 4
atggtcatagtatatccacatttgatatattttttcttgtttttttagcttccttccatttcag---cattacatcacaaaatatttttatttttgcttgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATTGGATCCCAAATGCGGTATGAAGTCACTGGTGATCCACTTTACAAG
|| | | | | | || || | | |||| | | || || || | | || ||| | | | | | || | |||| | |||||||| || |||| ||| ||| ||||| ||||||||||||||| ||||| ||||||| ||||||||||||||| |||| || ||||||||||| |||
ttgaatgtcgaactttggccttctat---tctattctagaaatcgtatctaattttaagtcaaggcccatgagttaattttaaaattctcttttctcatgtagGCTAATGACATAGCTGATTTACATGCTAATACACATATCCCAATTGTTGTTGGATCTCAAATGCGGTATGAAATCACAGGCGATCCACTTTATAAGMapped 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|161721828|gb|FC070507.1|FC070507EST: TGGCTCACCTTTTTGACAAACCATGCTTCCTAGGTTTGCTTGCAGTACAG GCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATT
genomic: TGGCTCACCTTTTTGACAAACCGTGCTTCCTAGGTTTGCTTGCAGTACAGgtaattttac ... ttgcttgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagcttccttccatttcagcattacatcacaaaatatttttatttttgcttgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATTGGATCCCAAATGCGGTATGAAGTCACTGGTGATCCACTTTACAAG
tttttatttttgctt CT-rich tract
attacatcacaaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggtcatagtatatccacatttgatatattttttcttgtttttttagcttccttccatttcagcattacatcacaaaatatttttatttttgcttgtagGCTGATAGCATATCTGGTTTTCATGCCAATACACATATCCCAGTTGTTATTGGATCCCAAATGCGGTATGAAGTCACTGGTGATCCACTTTACAAG
- - - - - - - -ccacatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaata