Sequence
atgc intronic sequence ATGC exonic sequence...caataaccagtaaatttctcaaggttctgatttttattactatttttaattttattttatttaccatttatttatttgaactctttcctctgcaatttagTTTCTATCACGGACTATTAAAGATGGTTCCTATTTCAAGAATCTGCCTAAGTCAAGCGCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g02640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g62080.1 (Oryza sativa), 3'ss of exon 9
----------------------------------caataaccagtaaatttctc-----aaggttctgatttttattactatttttaattttattttatttaccatttatttatt--tgaactctt--tcctctgcaatttagTTTCTATCACGGACTATTAAAGATGGTTCCTATTTCAAGAATCTGCCTAAGTCAAGCGCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACC
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gtggcttcaatactaaattttgtcattcgaactataatcttttgcaattttatccgttaacacttgtggttgccattacattatgtcaattagtacgagcatacatttattttttactgatttttatattgttttccataaagGTTACAATACGGCCCCCAAAGGATGGTTCCTTTTTTAAGAATCTTCCAAAATCTAGTGCTATCAAGCTGATTGATTTTGGAAGTACAACATTCGAACACC
upper sequence: Vv08s0040g02640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G33100.1 (Glycine max), 3'ss of exon 7
-caataacca-gtaaatttctcaaggttctgatttttattactatttttaattttattttatttaccatttatttatttgaactctttcctctgcaatttagTTTCTATCACGGACTATTAAAGATGGTTCCTATTTCAAGAATCTGCCTAAGTCAAGCGCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACC
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cctgcaaccataggaagcacttatcgcttgtaatttt--caatgatcaaaattttacatttgttcttttttgttggcttattcttcatctgtggcaattaagTTTCTATCACGGAATACAAAAGATGGCTCCTATTTCAAGAATCTACCCAAGTCAAGTGCCATTAAGCTCATTGATTTCGGGAGTACATCATTTGAACATC
upper sequence: Vv08s0040g02640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G35800.1 (Glycine max), 3'ss of exon 5
caataaccagtaaatttctcaaggttctgatttttattactatttttaattttattttatttaccatttatttatttgaactctttcctctgcaatttagTTTCTATCACGGACTATTAAAGATGGTTCCTATTTCAAGAATCTGCCTAAGTCAAGCGCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACC
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ccataggaattaggaagcattatcccttgtaattttcaatgataaaaaattctacatttttccttttttgttggcttattcttcatctgtggaaattaagTTTCTATCACGGAACACAAAAGATGGCTCCTATTTCAAGAATCTACCCAAGT------------------------------------------------
upper sequence: Vv08s0040g02640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G53570.4 (Arabidopsis thaliana), 3'ss of exon 9
caataaccagtaaatt-tctcaaggttctgatt-tttattactatttttaattttat-tttatttacca-----tttattta---tttgaactctttcctctgc-----------aatttagTTTCTATCACGGACTATTAAAGATGGTTCCTATTTCAAGAATCTGCCTAAGTCAAGCGCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACC
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--gtgagcaatcaatcatctccaagctggactcatttattttcatggctaatatgatatccatccatgaaggaacttgtataactcttgacccttttcctatgtgtggtcatgaaaatctagTTTCTATCCCGACCCACAAAAGATGGGTCATACTTCAAGAATCTGCCCAAGTCAAGTGCCATCAAGCTCATTGATTTCGGAAGTACAACATTTGAACATCMapped 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|71860081|gb|DT009136.1|DT009136EST: AAAATATTCTTCTTGTTTCTTCAGATTACATCAAAGTGCCAGATTATAAG TTTCTATCGCGGACTATTAAAGA
genomic: AAAATATTCTTCTTGTTTCTTCAGATTACATCAAAGTGCCAGATTATAAGgtattgcgac ... tgcaatttagTTTCTATCACGGACTATTAAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaattttattttatttaccatttatttatttgaactctttcctctgcaatttagTTTCTATCACGGACTATTAAAGATGGTTCCTATTTCAAGAATCTGCCTAAGTCAAGCGCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACC
ttttaat putative branch site (score: 3)
ctctttcctctgc putative PPT
tttattttatttacca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caataaccagtaaatttctcaaggttctgatttttattactatttttaattttattttatttaccatttatttatttgaactctttcctctgcaatttagTTTCTATCACGGACTATTAAAGATGGTTCCTATTTCAAGAATCTGCCTAAGTCAAGCGCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
-aataacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccattta