Sequence
atgc intronic sequence ATGC exonic sequence...caacctttttccatctttttactacccttgttctaatcctggattccttactgctaattgagtctatttattaagcaataaatctgctgcttctctgcagTCAATTGGATTTGTTGGTCCTGGAATTGCTCTTATTGGTCTAACTGCAGCAAAAAGCCCATTAATTGCATCTGCTTGGCTTACTCTAGCCGTTGGGCTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g63290.2 (Oryza sativa), 3'ss of exon 5
caacctttttccatctttttactacccttgttctaatcctggat--tccttactgctaattgagtctattta---ttaagcaataaatctgctgcttctct-gcagTCAATTGGATTTGTTGGTCCTGGAATTGCTCTTATTGGTCTAACTGCAGCAAAAAGCCCATTAATTGCATCTGCTTGGCTTACTCTAGCCGTTGGGCTTA
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------tctgtgatattggcaatttgtttgttttaatcagtaatgaacgtttatccaatttgcctctaatgaagctcaagttgactatttactatgccttttgcagACAATTGGCTTTGTGGGTCCTGGTGTGGCTCTTCTTGGACTAAATGCAGCAAAGAGTCCAGTCATCGCTTCTGCTTGGCTTACTATCGCTGTAGGTTTGA
upper sequence: Vv06s0004g06040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G46980.2 (Arabidopsis thaliana), 3'ss of exon 5
------------------------------------------------------------caacctttttccatctttttactacccttgttcta---atcctggattccttactgctaattgagtctatttattaagcaataaatct-gctgcttctctg-cagTCAATTGGATTTGTTGGTCCTGGAATTGCTCTTATTGGTCTAACTGCAGCAAAAAGCCCATTAATTGCATCTGCTTGGCTTACTCTAGCCGTTGGGCTTA
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gtgcgtgatgtgtcacaagatttcattcaatcaagagctctctcagactgaagagttctgtaaacatatccgaaagatgttgaagcctgatgcaatgaaatctggtgcattcagcattcttt---ttcttttgctgactgggggatttcatttcttgtttggcagTCCATTGGTTTCATTGGTCCTGGAATTGCTCTCATTGGTCTAACGACGGCAAAACAACCTTTAGTGGCATCAGCCTGGCTTAGTTTAGCCGTTGGGCTTAMapped 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|161720682|gb|FC070620.1|FC070620EST: TTTTGATACAGAGGGGCTTAAGTGTCACTATGACTCGCAAAATCATGCAG TCAATTGGATTCGTTGGTCCTGGAATTGCTCTTATTGGTCTAACTGCAGCA
genomic: TTTTGATACAGAGGGGCTTAAGTGTCACTATGACTCGCAAAATCATGCAGgtttgccttt ... ttctctgcagTCAATTGGATTTGTTGGTCCTGGAATTGCTCTTATTGGTCTAACTGCAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttactgctaattgagtctatttattaagcaataaatctgctgcttctctgcagTCAATTGGATTTGTTGGTCCTGGAATTGCTCTTATTGGTCTAACTGCAGCAAAAAGCCCATTAATTGCATCTGCTTGGCTTACTCTAGCCGTTGGGCTTA
tgctaat putative branch site (score: 2)
tctgctgcttctct putative PPT
tctatttattaagcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caacctttttccatctttttactacccttgttctaatcctggattccttactgctaattgagtctatttattaagcaataaatctgctgcttctctgcagTCAATTGGATTTGTTGGTCCTGGAATTGCTCTTATTGGTCTAACTGCAGCAAAAAGCCCATTAATTGCATCTGCTTGGCTTACTCTAGCCGTTGGGCTTA
caacctt
- - - - - ccatctt
- - - - - - - - - - - - cccttgt
- - - - - - - - - - - - - - - - - - tcctgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctgctg