Sequence
atgc intronic sequence ATGC exonic sequence...ctgaacgtgatttaatattttcagttaatttattgttttaggaattcaaatagttgtttatgttcttatacgttatctgtatgtatgctaaattttgcagATTGTGTCAAAAATTTTGTCTGAACCAATTCGTTCACACAAGGACCTGGATAAAGATTCTGCTCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os08g36994.1 (Oryza sativa), 3'ss of exon 4
ctgaacgtga---tttaatattttcagttaatttattgttttaggaattcaaatagttgtttatgttcttatacgttatctgtatgtatgctaaattttgcagATTGTGTCAAAAATTTTGTCTGAACCAATTCGTTCACACAAGGACCTGGATAAAGATTCTGCTCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGAC
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-taaatgtctgctcttgatatatttttttaagaaactgcatgagatattcttataccttttttccccaatatacctgatg-atgttcttggcaaaattt-cagATCGTATCCAAGTCCTTGTCAGAACCAATTCGTTCACATAAAGACCTTGATAAAGGTTCTGCTCCACTTTATACCAAAGCTGTTAAATTCTATGAGGAGA
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G22740.1 (Glycine max), 3'ss of exon 2
ctgaacgtgatttaatattttcagttaatttattgttttaggaattcaaatagttgtttatgttcttat-acgttatctgtatgta-tgctaaattttgcagATTGTGTCAAAAATTTTGTCTGAACCAATTCGTTCACACAAGGACCTGGATAAAGATTCTGCTCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGAC
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--ttccttctcttgatatcatgggcaagaatgatttccatctcacttgattggttgatggcattaagctgattctctctatatgaactattgtatattgcagATTGTATCCAAACAACTTTCTGAACCAATTCGCTCTCACAAGGATCTGGATAAAGATTCTGTGCCACATTACCATAAATGTGTGAAATTCTATGATGGAC
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G09230.1 (Glycine max), 3'ss of exon 2
ctgaacgtgatttaatattttcagttaatttattgttttaggaattcaaatagttgtttatgttcttat-acgttatctgtatgta-tgctaaattttgcagATTGTGTCAAAAATTTTGTCTGAACCAATTCGTTCACACAAGGACCTGGATAAAGATTCTGCTCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGAC
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--ttccttctcttgataccatgggcaagaatgatttccgtctcacttgattggttgatggcattaagctgattctctctatatgaactattgcatattgcagATTGTATCCAAACAACTTTCTGAACCAATTCGCTCTCACAAGGATCTGGATAAAGATTCTGTGCCACATTACCATAACTGTGTGAAATTCTATGATGGACMapped 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|71884115|gb|DT033170.1|DT033170EST: CTAGGATCATGGCATTTATTGGTGGTCCATCAACAGAAGGGGCGGGAGCT ATTGTGTCAAAAATTTTGTCTGAACCAATTCGTTCACACAAGGACCTGGAT
genomic: CTAGGATCATGGCATTTATTGGTGGTCCATCAACAGAAGGGGCGGGAGCTgtaagttttg ... aattttgcagATTGTGTCAAAAATTTTGTCTGAACCAATTCGTTCACACAAGGACCTGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaatagttgtttatgttcttatacgttatctgtatgtatgctaaattttgcagATTGTGTCAAAAATTTTGTCTGAACCAATTCGTTCACACAAGGACCTGGATAAAGATTCTGCTCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGAC
tgctaaa putative branch site (score: 2)
tttatgttcttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgaacgtgatttaatattttcagttaatttattgttttaggaattcaaatagttgtttatgttcttatacgttatctgtatgtatgctaaattttgcagATTGTGTCAAAAATTTTGTCTGAACCAATTCGTTCACACAAGGACCTGGATAAAGATTCTGCTCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - caaatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgct