Sequence
atgc intronic sequence ATGC exonic sequence...gataccattttgcttggatggttggatctctgcagttgtttctttagcttatatgatatcccagataagtaacaatgtttagtcatctgatttgatctagACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAAGATAATTTTCTTGAGGCTGTTTCAAATATGTCCCGTCTGAGGCACCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os02g09740.2 (Oryza sativa), 3'ss of exon 11
gataccattttgcttggatggttggatctctgcagttgtttctttagcttat--atgatatccca-gataagtaacaatgtttagtcatctgatttgatc-tagACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAAGATAATTTTCTTGAGGCTGTTTCAAATATGTCCCGTCTGAGGCACCAAA
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----ctataggcagtaaaactaaaaatatttgaaattttttcaccctcttattatttttgtgtcatgctatgcactgcgactgagttgcgtgctgtgattgcagGTTCTTGCAGTTAAGAAGATAGATAGTTCAGCCCTTTCCTTGCAGGAAGAAGACAATTTTCTTGAGGCTGTATCGAGCATGTCACGGCTAAGGCATCCAA
upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G103070_T01 (Zea mays), 3'ss of exon 11
gataccattttgcttggatggttggatctctgcagttgtttcttta-gcttatatgatatcccagataagtaacaatgtttagtcatctgatttgatctagACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAAGATAATTTTCTTGAGGCTGTTTCAAATATGTCCCGTCTGAGGCACCAAA
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-gtagtggtccacgaatatacatgttttttcagaccctctgcatgacagttgtttgttggtcatcctgtgtgctgcacctgagttgtgtgttatgatacagGTTCTTGCTGTTAAAAAGATAGATAGCGCCGCACTTTCTTTACAGGAAGAAGACAATTTCCTTGAGGCTGTATCGAGCATGTCTCGGCTAAGGCATCCAA
upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA09G00970.1 (Glycine max), 3'ss of exon 11
gataccattttgcttgga--tggttggatctctgcag--ttgtttctttagcttatatgatatcccagataagtaacaatgtttagtcatctgatttgatctagACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAAGATAATTTTCTTGAGGCTGTTTCAAATATGTCCCGTCTGAGGCACCAAA
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--tttgaacttggagaaaattatttttatccctataaaataaaagctatggacactataatatgttattatgctaatg--gttccgatatttgcttatgtttagGTAATGGCTATTAAGAAGATCGACAACTCAGCTTTGTCATTACAGGAGGAAGACAATTTTCTTGAAGCTGTTTCAAATATGTCACGCTTGCGGCACCCAA
upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA15G11820.1 (Glycine max), 3'ss of exon 11
--gataccattttgcttggatggttggatctctgcagttgtttctttagcttatatgatatcccagataagtaacaatgtttagtcatctgatttgatctagACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAAGATAATTTTCTTGAGGCTGTTTCAAATATGTCCCGTCTGAGGCACCAAA
||| || |||||| || | | | | | | | |||| | ||| | | | ||| | || || ||| | ||| |||||| ||||||||||| ||||| |||| ||||| ||||| || ||||| ||||||||||| |||||||| |||||||| || || |||||| ||
cttataaatttgaacttggagaaaattatttttatccctataaagtaaaagt-tatggacactataatatgcta-atggttccgatatttgcttttgtttagGTAATGGCTATTAAGAAGATCGACAACTCAGCTCTGTCATTACAGGAGGAAGACAATTTTCTTGAAGCTGTTTCTAATATGTCACGCTTGCGGCACCCAA
upper sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT4G22130.2 (Arabidopsis thaliana), 3'ss of exon 6
gataccattttgcttggatggttggatctctgcagttgtttc--tttagcttatatgatatcccagataagtaacaatgtttagtcatctgatttgat-ctagACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAAGATAATTTTCTTGAGGCTGTTTCAAATATGTCCCGTCTGAGGCACCAAA
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----------------gtaactcaaaagttgacagctttctacactaagcaaagctaatattctttctttg-aactaaatttttctgtgtaacataattctagATAATGGCGATTAAGAAGATTGATAATGCAGCACTTTCATTACAAGAAGAAGATAATTTCTTAGAAGCCGTTTCAAATATGTCGCGGTTGAGGCATCCAAMapped 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|110701130|gb|EE078389.1|EE078389EST: GTGAAGGTTCCCTTGGCCGTGTTTATAGAGCTGATTTTCCAAATGGAAAG ACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAA
genomic: GTGAAGGTTCCCTTGGCCGTGTTTATAGAGCTGATTTTCCAAATGGAAAGgtattctcat ... tttgatctagACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAA
EST:
gi|33407798|gb|CF213425.1|CF213425EST: GTGAAGGTTCTCTTGGCCGTGTTTATAGAGCTGATTTTCCAAATGGAAAG ACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAA
genomic: GTGAAGGTTCCCTTGGCCGTGTTTATAGAGCTGATTTTCCAAATGGAAAGgtattctcat ... tttgatctagACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcttatatgatatcccagataagtaacaatgtttagtcatctgatttgatctagACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAAGATAATTTTCTTGAGGCTGTTTCAAATATGTCCCGTCTGAGGCACCAAA
atatgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gataccattttgcttggatggttggatctctgcagttgtttctttagcttatatgatatcccagataagtaacaatgtttagtcatctgatttgatctagACAATGGCAATTAAGAAGATAGACAATGCAGCACTGTCTTTACAAGAAGAAGATAATTTTCTTGAGGCTGTTTCAAATATGTCCCGTCTGAGGCACCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- taccatt
- - - - - tgcttgg
- - - - - - - - - tggttgg
- - - - - - - - - - - - - - tctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcccaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtaacaa