Sequence
atgc intronic sequence ATGC exonic sequenceTAGTTATCAGAGAGAAGCTTGCTGAGTTGTATGAGTCCGAGCAGCAGTGGTCAAAGGCAGCACAGATGCTCAGTGGCATTGATTTAGACTCCACAATGAGgtgtgggagctgtcttcttttattttgctcatgaaacagtgaagatttttatacatccttggcataacactgggatatttattttgttttatgatgtctccccaccag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g12250.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os03g10120.2 (Oryza sativa), 5'ss of exon 3
TAGTTATCAGAGAGAAGCTTGCTGAGTTGTATGAGTCCGAGCAGCAGTGGTCAAAGGCAGCACAGATGCTCAGTGGCATTGATTTAGACTCCACAATGAGgtgtgggagctgtcttcttttattttgctcatgaaacagtgaagatttttatacatccttggcataacactgggatatttattttgttttatgatgtctccccaccag
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TAGTGATTAGAGAGAAGCTTGCAGAACTGTATGAGTCTGAACAACAATGGTCAAAAGCTGCACAGATGCTTAGTGGGATTGACTTGGACTCAGGGATCAGgta--gaaactgacttacttttctttc----tgaacatgtgtatggcttt-----ttctt--caggacatgaagcatctgattcaaatttaaattatcag--------
upper sequence: Vv18s0001g12250.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G153769_T01 (Zea mays), 5'ss of exon 3
TAGTTATCAGAGAGAAGCTTGCTGAGTTGTATGAGTCCGAGCAGCAGTGGTCAAAGGCAGCACAGATGCTCAGTGGCATTGATTTAGACTCCACAATGAGgtgtgggagctgtcttctttt-attttgctcatgaaacagtgaagat-ttttatacatccttggcataacactgggatatttattttgttttatgatgtctccccaccag
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TAGTGATTAGAGAGAAGCTTGCAGAGCTATATGAGTCTGAACAACAATGGTCAAAAGCAGCACAAATGCTTAGTGGGATTGACTTGGATTCAGGAATCAGgta--gaaactaacttgtcttgactcttttcatgtaatatgaatggtgttttacatattgacatgaaagttctgacctattccttttcaattag----------------
upper sequence: Vv18s0001g12250.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA09G36550.1 (Glycine max), 5'ss of exon 4
TAGTTATCAGAGAGAAGCTTGCTGAGTTGTATGAGTCCGAGCAGCAGTGGTCAAAGGCAGCACAGATGCTCAGTGGCATTGATTTAGACTCCACAATGAGgtgtgggagctgtcttctt-------ttattttgctcatgaaacagtgaagatttttatacatcc-----ttggcataacactgggatatttattttgttttatgatgtctccccaccag
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TAGTTATTAGAGAGAAACTTGCTGAGCTTTATGAATCTGAGAAGCAATGGTCAAAAGCAGCTCAAATGCTCAGTGGTATTGACCTTGATTCAGGAATGAGgtttcagaatttcttacctcccatatttattttcttgtgtaaactattataattataattcagccaaaatttaagatgtctctcttttacttattt-gtactttcatttatttt-atcag
upper sequence: Vv18s0001g12250.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA12G00810.1 (Glycine max), 5'ss of exon 4
TAGTTATCAGAGAGAAGCTTGCTGAGTTGTATGAGTCCGAGCAGCAGTGGTCAAAGGCAGCACAGATGCTCAGTGGCATTGATTTAGACTCCACAATGAGgtgtgggagct------------gtcttcttttattttgctcatg-aaacagtgaagatttttatacatccttggcataacac-tgggatatttattttgttttatgatg--tctccccaccag
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TAGTTATTAGAGAGAAACTTGCTGAGCTTTATGAATCTGAGAAGCAATGGTCTAAAGCAGCTCAAATGCTCAGTGGTATTGACCTGGATTCAGGAATGAGgtctcagaatttcttacctcctagtcttatatttattttcttgtgtagactattataattataattcagccaaaacttaaaatgtctctcatttacttatttgtactttgaattattttatcag
upper sequence: Vv18s0001g12250.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT5G42970.1 (Arabidopsis thaliana), 5'ss of exon 3
TAGTTATCAGAGAGAAGCTTGCTGAGTTGTATGAGTCCGAGCAGCAGTGGTCAAAGGCAGCACAGATGCTCAGTGGCATTGATTTAGACTCCACAATGAGgtgtgggagctgtcttcttttattttgctcatgaaacagtgaagatttttatacatccttggcataacactgggatatttattttgttttatgatgtctccccaccag
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TTGTTATCAGAGAAAAACTTGCGGGTTTGTATGAATCAGAGCAGGAATGGTCAAAAGCAGCACAGATGTTGAGTGGAATTGATCTGGATTCTGGAATGAGgtgtgtgg--cattgagcagaattttgttt---------tagtttcctctctatgttctt---------ttgtgttgcttattttggatttgcggaattctttattagMapped 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|294965829|gb|GW837312.1|GW837312EST: TCAAAGGCAGCACAGATGCTCAGTGGCATTGATTTAGACTCCACAATGAG GGTTATTGATGATACATTCAGATTGTCGAAATGTGTCCAAATAGCTCGTCT
genomic: TCAAAGGCAGCACAGATGCTCAGTGGCATTGATTTAGACTCCACAATGAGgtgtgggagc ... tccccaccagGGTTATTGATGATACATTCAGATTGTCGAAATGTGTCCAAATAGCTCGTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAGTTATCAGAGAGAAGCTTGCTGAGTTGTATGAGTCCGAGCAGCAGTGGTCAAAGGCAGCACAGATGCTCAGTGGCATTGATTTAGACTCCACAATGAGgtgtgggagctgtcttcttttattttgctcatgaaacagtgaagatttttatacatccttggcataacactgggatatttattttgttttatgatgtctccccaccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG