Sequence
atgc intronic sequence ATGC exonic sequence...taaacaataaagaaaattaggagaataagagtgccttgtattttttgctgcatcatgatgtgtggtttgatatatttaccttctcttaaatatttaccagGTTTACAACGCACTTGGTGTCAGTTATGTTCGTGATGGGAAGCTTGAAAAGGGAATCACTCAGTTTGAGAATGCCGTGAAACTTCAACCAGGCTATGTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g00860.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G31640.1 (Glycine max), 3'ss of exon 3
---taaacaataaagaaaattaggagaataagagtgccttgtattttttgctgcatcatgatgtgtggtttgata-tatttaccttctcttaaatatttaccagGTTTACAACGCACTTGGTGTCAGTTATGTTCGTGATGGGAAGCTTGAAAAGGGAATCACTCAGTTTGAGAATGCCGTGAAACTTCAACCAGGCTATGTCA
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aaataaa-gattgtgttagttagtatgttgttagtgctcttgattct--gataagactttttaacaactttggtaatgatcaaatcatccaacacatcaat-agGTTTACAACGCTCTTGGTGTGAGCTATGTCCGCGATGGGAAAGTTGACAAAGGAATTGCTCAGTTTGAGACAGCTGTCAAGCTTCAACCAGGCTATGTCA
upper sequence: Vv18s0072g00860.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G35950.3 (Glycine max), 3'ss of exon 5
taaacaataaagaaaattaggagaataagagtgccttgtatt-ttttgctgcatcatgatgtgtggtttgata-tatttaccttctcttaaatatttaccagGTTTACAACGCACTTGGTGTCAGTTATGTTCGTGATGGGAAGCTTGAAAAGGGAATCACTCAGTTTGAGAATGCCGTGAAACTTCAACCAGGCTATGTCA
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tctgtta-aataaagattgtgtcagttagtatgttgctcatgattctgatatgacttgttaataactttggtaatgatcacatcatccaacacatctat-agGTTTACAACGCTCTTGGTGTGAGCTATGTCCGCGATGGGAAAGTTGACAAAGGAATTGCTCAATTTGAGACAGCTGTCAAGCTTCAACCAGGCTATGTCAMapped 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|29784943|gb|CB341514.2|CB341514EST: GCTTCAGGCAATTGAGAAA-GATCATGGAGATGATCAAGATCTTGCCCAG GTTTACAACGCACTTGGTGTCAGTTATGTTCGTGATGGGAAGCTTGAAAAG
genomic: GCTTCAGGCAATTGAGAAATGGG-ATGGAGATGATCAAGATCTTGCCCAGgtatgctagt ... tatttaccagGTTTACAACGCACTTGGTGTCAGTTATGTTCGTGATGGGAAGCTTGAAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctgcatcatgatgtgtggtttgatatatttaccttctcttaaatatttaccagGTTTACAACGCACTTGGTGTCAGTTATGTTCGTGATGGGAAGCTTGAAAAGGGAATCACTCAGTTTGAGAATGCCGTGAAACTTCAACCAGGCTATGTCA
gtttgat putative branch site (score: 5)
atatatttaccttctc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaacaataaagaaaattaggagaataagagtgccttgtattttttgctgcatcatgatgtgtggtttgatatatttaccttctcttaaatatttaccagGTTTACAACGCACTTGGTGTCAGTTATGTTCGTGATGGGAAGCTTGAAAAGGGAATCACTCAGTTTGAGAATGCCGTGAAACTTCAACCAGGCTATGTCA
-aaacaat
- - - - -aagaaaa
- - - - - - - - - - - -aataaga
- - - - - - - - - - - - - - - -tgccttg
- - - - - - - - - - - - - - - - - - - - - - - -ctgcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtgg