Sequence
atgc intronic sequence ATGC exonic sequence...ggcatgcggaggtggatttaatattaagatctatggcttacgcttgttgatggacactggttttgaaagatgttttgcatgcttttttctttatttccagGTGGGGGTTGCTGAACTTAAAATTGCAGTTGAGAGAACTGGAGGAATTGTTGTGCTTGCTGAAAGTTTTGGCCATGCAGTTTTTAGGGACTCTCTTAAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g36994.1 (Oryza sativa), 3'ss of exon 5
ggcatgcggaggtggatttaatattaagatctatggcttacgcttgttgatggacac-tggttttgaaagatgttttgcatgcttttttctttatttccagGTGGGGGTTGCTGAACTTAAAATTGCAGTTGAGAGAACTGGAGGAATTGTTGTGCTTGCTGAAAGTTTTGGCCATGCAGTTTTTAGGGACTCTCTTAAAC
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-atatcatgaaacatcactaattttcttgattctttgctatgattttgcatggttgccttgtttagaattaacagtttcttgtcatatactcttttctcagGTTGGTGTTGCTGAGATGAAGGTTGCAGTGGAGAGGACTGGGGGAATAGTTGTGCTTGCAGAAAGTTTTGGCCATTCTGTTTTTAAAGAGTCACTCCAAC
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os09g28610.1 (Oryza sativa), 3'ss of exon 5
------------------------------------------------------------------ggcatgcggaggtggatttaatattaagatctatggcttacgcttgttgatggacactggttttgaaagatgttttgcatgcttttttctt-tatttccagGTGGGGGTTGCTGAACTTAAAATTGCAGTTGAGAGAACTGGAGGAATTGTTGTGCTTGCTGAAAGTTTTGGCCATGCAGTTTTTAGGGACTCTCTTAAAC
|||| || || | |||| | | | | ||| | | | || | | || || || | | | | || |||||| || ||||||||| | || ||||| |||||| ||||||||||||||||| ||||| ||||||||||| || | ||||| | ||||| ||| |
gtatgttgcttatttatttttaacatgaggccataaatacctttttacagacaaaatgcaacctgctcgatgctttctcagacaacatcacagtatctctattatgtggattgaaatgaatggttatcttatttggactatttattgtttgtctttaattttcccagGTTGGTGTTGCTGAAATGAAGGTTGCAATTGAGAAGACTGGAGGAATTGTTGTCCTTGCGGAAAGTTTTGGTCACTCTGTTTTCAAAGACTCGCTTCTTC
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G063775_T01 (Zea mays), 3'ss of exon 4
ggcatgcggaggtggatttaatattaagatc-tatggcttacgcttgttgatggacactggttttgaaagatgttttgcatgcttttttctttatttc-cagGTGGGGGTTGCTGAACTTAAAATTGCAGTTGAGAGAACTGGAGGAATTGTTGTGCTTGCTGAAAGTTTTGGCCATGCAGTTTTTAGGGACTCTCTTAAAC
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-ttatgaaaaaaaattgtttatgttttcattgtgtaaattgagacgtgtggtt-accttgtttgcaactgatagatttcttatttgtggtcttattctatagGTTGGAGTCGCTGAAATGAAGGTTGCGATTGAGAAGACTGGAGGAATTGTTGTCCTTGCTGAAAGTTTTGGTCATTCTGTTTTCAAAGACTCACTTCTCC
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G22740.1 (Glycine max), 3'ss of exon 3
-ggcatgcggaggtggatttaatattaagatctatggcttacgcttgttgatggacactggttttgaaagatgttttgcatgcttttttctttatt-tccagGTGGGGGTTGCTGAACTTAAAATTGCAGTTGAGAGAACTGGAGGAATTGTTGTGCTTGCTGAAAGTTTTGGCCATGCAGTTTTTAGGGACTCTCTTAAAC
| ||| | | | | | | | | |||| | | || || || ||| || | |||| | | |||||| ||||||| || ||||||||||||||| ||| ||||| ||||| ||||| ||||||| ||||||||||||||||||||| |||| || | ||| || || || |
agccattggtttaagaaatctctgcttgtggttgt--tttactttgtataattttcatatattaaaaaatattaaatttctgctgtatactttatcctccagGTTGGAATTGCTGAACTTAAAACTGCTGTTGAAAGAACCGGAGGTCTTGTTGTACTTGCTGAAAGTTTTGGCCATTCAGTGTTCAAGGATTCACTAAAGC
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G09230.1 (Glycine max), 3'ss of exon 3
ggcatgcggaggtggatttaatattaagatcta--tggcttacgcttgttgatggacactggttttgaaagatgttttgcatgcttttttctttatt-tccagGTGGGGGTTGCTGAACTTAAAATTGCAGTTGAGAGAACTGGAGGAATTGTTGTGCTTGCTGAAAGTTTTGGCCATGCAGTTTTTAGGGACTCTCTTAAAC
| | | | || ||| || || | || |||| | | || || | || ||| || | |||| ||| |||||| ||||||| || ||||||||||||||| || ||||| ||||| ||||| ||||||| ||||||||||||||||||||| |||| || | ||| || || || |
gataaatgttcataga---aatttttgcatgtggttgttttactttgcataattttcatttattaaaaaatattaaatttctgctctttactttatcctccagGTTGGAATTGCTGAACTTAAAACAGCTGTTGAAAGAACCGGAGGTCTTGTTGTACTTGCTGAAAGTTTTGGCCATTCAGTGTTCAAGGATTCACTAAAGC
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G21630.1 (Arabidopsis thaliana), 3'ss of exon 2
ggcatgcggaggtggatttaatattaagatctatggcttacgcttgttgatggacactggttttgaaagatgttttgcatgcttttttctttatttccagGTGGGGGTTGCTGAACTTAAAATTGCAGTTGAGAGAACTGGAGGAATTGTTGTGCTTGCTGAAAGTTTTGGCCATGCAGTTTTTAGGGACTCTCTTAAAC
||| ||| | || |||| | || | || | || ||| | || | || || | | | | || || |||| || ||||||| || ||| ||||||||||| ||||| ||| |||| ||||||||||||||||||||||| |||| ||||| || ||||| ||||
-----------gtg-attctgtggaaatatctgtca-ttgttagtactgtctttc-ttgttttgtagctatctcttttat-ttaatatgtgcatctctagGTAGGCATTGCTGAGCTCAAAGTTGCAGTTGAGCAGACTGGTGGATTTGTCGTGCTTGCTGAAAGTTTTGGCCACTCAGTATTTAGAGATTCTCTCAAACMapped 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|71884115|gb|DT033170.1|DT033170EST: TTGTACATCAAGGACATGTACTTGATCTGTTTGCTTGTGCCCTTGACCAG GTGGGGGTTGCTGAACTTAAAATTGC
genomic: TTGTACATCAAGGACATGTACTTGATCTGTTTGCTTGTGCCCTTGACCAGgtaatattta ... ttatttccagGTGGGGGTTGCTGAACTTAAAATTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgatggacactggttttgaaagatgttttgcatgcttttttctttatttccagGTGGGGGTTGCTGAACTTAAAATTGCAGTTGAGAGAACTGGAGGAATTGTTGTGCTTGCTGAAAGTTTTGGCCATGCAGTTTTTAGGGACTCTCTTAAAC
tgttgat putative branch site (score: 4)
catgcttttttcttta putative PPT
ttttttctttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggcatgcggaggtggatttaatattaagatctatggcttacgcttgttgatggacactggttttgaaagatgttttgcatgcttttttctttatttccagGTGGGGGTTGCTGAACTTAAAATTGCAGTTGAGAGAACTGGAGGAATTGTTGTGCTTGCTGAAAGTTTTGGCCATGCAGTTTTTAGGGACTCTCTTAAAC
- catgcgg
- - - - - - - - - - - - - - - -tatggct
- - - - - - - - - - - - - - - - - - - - - cttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - gacactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttttgca