Sequence
atgc intronic sequence ATGC exonic sequence...atttatagtcagtagcttcatgtggtcttttggtggtaacactctgtgatttaatgttaacaaatatattttggtgctaaaatcttattctattgggcagGTCTGTGTTCTGGGCTTTGTTTGGGGCAATATATTTATGTTATGGAATGCCAGAAGTATACCGTGTTCTTTTTGAAGTATTTGGAATGGACCCAGAACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g00400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g59510.1 (Oryza sativa), 3'ss of exon 1
--------atttatagtcagtagcttcatgtggtcttttggtggtaacactctgtgatttaatgttaacaaatatattttggtgctaaaatcttattctattgggcagGTCTGTGTTCTGGGCTTTGTTTGGGGCAATATATTTATGTTATGGAATGCCAGAAGTATACCGTGTTCTTTTTGAAGTATTTGGAATGGACCCAGAACAT
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ctacaacagtttgt-gctactaactt---atggacatgccagggtaactctttaagaaaaatggtc--tgggtagctctttaagcaaaatgccatttgtgtta--cagGGCTGTATTCTGGGCACTGTTTGGAGCTATATATTTGTGCTTTGGAATGCCTGAAGTCTACCGTGTTCTTTTTGAGGCGTTTGGCATGGACCCTGAAGAT
upper sequence: Vv07s0129g00400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G39960.1 (Glycine max), 3'ss of exon 1
atttatagtcagta-gcttcatgtggtc--ttttggtggtaacactctgtgatttaatgttaacaaatatattttggtgctaaaatcttattctat---tgggcagGTCTGTGTTCTGGGCTTTGTTTGGGGCAATATATTTATGTTATGGAATGCCAGAAGTATACCGTGTTCTTTTTGAAGTATTTGGAATGGACCCAGAACAT
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-gatagaaccattttaattaatgaagttggtctctgtctaatctatttgtgaaatga-attgttcactacattct----caaatttgttattctatgcacatgcagGTCAGTATTTTGGGCTTTGTTTGGGGCTATCTATCTTTGTTTTGGTATGCCAGAAGTGTATCGTGTTCTTTTTGAAGTCTTCGGAATGGATCCAGATGCC
upper sequence: Vv07s0129g00400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G05330.1 (Glycine max), 3'ss of exon 1
-----atttatagtcagtagcttcatgtggtcttttggtggtaacactctgtgatttaatgttaacaaatatattttggtgctaaaatcttattctat---tgggcagGTCTGTGTTCTGGGCTTTGTTTGGGGCAATATATTTATGTTATGGAATGCCAGAAGTATACCGTGTTCTTTTTGAAGTATTTGGAATGGACCCAGAACAT
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gatagatccattttaatcaatgaaat-tggtctcggtccaatctatttctgaaatgaattgttcac---tgcatttt----caaatgtgttattctatgcattttcagGTCAGTATTTTGGGCTTTGTTTGGGGCTATCTATCTTTGTTTTGGTATGCCAGAAGTGTATCGTGTTCTTTTTGAAGTCTTCGGAATGGATCCAGATGCC
upper sequence: Vv07s0129g00400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G37510.1 (Arabidopsis thaliana), 3'ss of exon 1
--atttatagtcagtagcttcatgtggtcttttggtggtaacactctgtgatttaatgttaacaaatatattttggtgctaaaatcttattctattgggcagGTCTGTGTTCTGGGCTTTGTTTGGGGCAATATATTTATGTTATGGAATGCCAGAAGTATACCGTGTTCTTTTTGAAGTATTTGGAATGGACCCAGAACAT
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ttggttgaattaaatgactgaaaact-tgacgagtctgtgcatcccaatgtctcataagtgacatgtacttatccatgttaatttctt-ttgttctggctagATCTGTGTTCTGGGCTTTGTTTGGTGCCATCTATCTATGTTTTGGGATGCCGGAAGTGTATCGTGTACTTTTTGAGGTGTTTGGGATGGATCCAGATGCTMapped 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|27585053|gb|CB007748.1|CB007748EST: TTTGATGACATGGACAGGTTGATTCGGAAGGAGCGCGAGCCTCCTGTGAA GTCTGTGTTCTGGGCTTTGTTTGGGGCAATATATTTATGTTATGGAATGCC
genomic: TTTGATGACATGGACAGGTTGATTCGGAAGGAGCGCGAGCCTCCTGTGAAgtaagttcca ... tattgggcagGTCTGTGTTCTGGGCTTTGTTTGGGGCAATATATTTATGTTATGGAATGCC
EST:
gi|110692931|gb|EE068720.1|EE068720EST: TTTGATGACATGGACAGGTTGATTCGGAAGGAGCGCGAGCCTCCTGTGAA GTCTGTGTTCTGGGCTTTGTTTGGGGCAATATATTTATGTTATGGAATGCC
genomic: TTTGATGACATGGACAGGTTGATTCGGAAGGAGCGCGAGCCTCCTGTGAAgtaagttcca ... tattgggcagGTCTGTGTTCTGGGCTTTGTTTGGGGCAATATATTTATGTTATGGAATGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgatttaatgttaacaaatatattttggtgctaaaatcttattctattgggcagGTCTGTGTTCTGGGCTTTGTTTGGGGCAATATATTTATGTTATGGAATGCCAGAAGTATACCGTGTTCTTTTTGAAGTATTTGGAATGGACCCAGAACAT
tgctaaa putative branch site (score: 2)
tcttattct CT-rich tract
ttaatgttaacaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttatagtcagtagcttcatgtggtcttttggtggtaacactctgtgatttaatgttaacaaatatattttggtgctaaaatcttattctattgggcagGTCTGTGTTCTGGGCTTTGTTTGGGGCAATATATTTATGTTATGGAATGCCAGAAGTATACCGTGTTCTTTTTGAAGTATTTGGAATGGACCCAGAACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - catgtgg
- - - - - - - - - - - - - - - tggtggt
- - - - - - - - - - - - - - - - - - - -cactctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgct