Sequence
atgc intronic sequence ATGC exonic sequence...ttggctaagaggagcatttgatctgaattaagttattcaggggtgatcatcttgagtttgatctggacaactaatgttaattctaagctagcttgagcagGATTCTTGCAAATAGACAATCTGCTGCACGTTCAAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0076g00330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os12g06520.1 (Oryza sativa), 3'ss of exon 1
ttggctaagaggagcatttg-atctgaattaagttattcaggggtgatcatcttgagtttgatctggacaactaatgttaattctaagctagct----tgagcagGATTCTTGCAAATAGACAATCTGCTGCACGTTCAAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCA
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-----gatctgggctatctgtgccttgcttgatttgtgatgtaattggggagatgtattggggcttgttgatttaggttaagcttgtgatggcgcttgtgtgcagAATTCTGGCGAACAGGCAGTCGGCTGCAAGGTCCAAGGAAAGGAAGATCAAGTACACTAGCGAGCTGGAGAGGAAGGTGCAGACACTGCAGACCGAGGCC
upper sequence: Vv18s0076g00330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G09140.1 (Glycine max), 3'ss of exon 1
--ttg-gctaagaggagcatttgatctgaattaagttattcaggggtgatcatcttgagtt--tgatctggacaactaatgttaattctaagctagcttgagcagGATTCTTGCAAATAGACAATCTGCTGCACGTTCAAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCA
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agttgtgttaatgggtatatggattgtggga-aaactggaagaaaatgattggtctgatgcactgatattggcttggatttgggatattgtg--ggcttg--cagGATTCTTGCTAACAGGCAATCTGCTGCAAGATCCAAGGAGAGGAAGATTCGTTACACAAGTGAGTTGGAGAGGAAGGTGCAGACTCTTCAGACTGAAGCA
upper sequence: Vv18s0076g00330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G28370.1 (Glycine max), 3'ss of exon 1
ttggctaagaggagcatttgatctgaattaagttattcaggggtgatcatcttgagtttgatctggacaactaatgttaattctaagctagcttgag----cagGATTCTTGCAAATAGACAATCTGCTGCACGTTCAAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCA
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---gttaac-ggtgtttggactttggattgtgggaaaactgggagaagatgattggtttggtgcactgatgttggtttggatttgggatgttgtgtgtttgcagGATGCTTGCTAACAGGCAATCTGCTGCAAGATCTAAGGAGAGGAAGATTCGTTACACAAGTGAGTTGGAGAAGAAGGTGCAGACTCTTCAGACTGAAGCAMapped 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|110727015|gb|EE103324.1|EE103324EST: CCTGATAGACTCGCAGAGCTTGCTTTGATCGATCCCAAGAGAGCTAAAAG GATTCTTGCAAATAGACAATCTGCTGCACGTTCAAAGGAGAGGAAAATACG
genomic: CCTGATAGACTCGCAGAGCTTGCTTTGATCGATCCCAAGAGAGCTAAAAGgtacctttta ... gcttgagcagGATTCTTGCAAATAGACAATCTGCTGCACGTTCAAAGGAGAGGAAAATACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcatcttgagtttgatctggacaactaatgttaattctaagctagcttgagcagGATTCTTGCAAATAGACAATCTGCTGCACGTTCAAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCA
taatgttaattctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggctaagaggagcatttgatctgaattaagttattcaggggtgatcatcttgagtttgatctggacaactaatgttaattctaagctagcttgagcagGATTCTTGCAAATAGACAATCTGCTGCACGTTCAAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - aagagga
- - - - - - -gcatttg
- - - - - - - - - - - - - - - - - - - aggggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggacaac