Sequence
atgc intronic sequence ATGC exonic sequence...gtctgtttagtttaatgaatcattcaaatgccttcaattattgcttttggaaggcatgaatagcttcaatgaagagattttccttttatgtttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g42950.3 (Oryza sativa), 3'ss of exon 7
gtctgtttagtttaatgaatcattcaaatgccttcaattattgcttttggaaggca-tgaatagcttcaatgaagagattttccttttatgtttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAG
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gtgtgcatgcgaattctttctatcggaaggaaaaaaaatgctgattcacaatgttacttaatatattgactatctgtaagctgactctgt-ttgcaaccagGTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATGATTTTGCCCATGGTTCTAACAATAGCGGAATCTCAG
upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G00470.1 (Glycine max), 3'ss of exon 7
gtctgtttagtttaatgaatcattcaaatgcct-tcaattattgcttttggaaggcatgaatagcttcaatgaagagattttc-cttttatgtttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAG
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-ttcaatgttattacttctttactctgatttctcttgaattttgagtatgtttttt-tcactattgtcatgaatgtaatttggacaaataaaattcatgcagGTCCTTCCACCACTTTGTGCAGAGCTTAGGAATGTGGTGATACAGCCAATGATTCTACCAATGGTTCTAACCATTGCCGAGTCTCAG
upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 7
-gtctgtt-tagtttaatgaatcattcaaatgccttcaattattgcttttggaaggcatgaatagcttcaatgaagagattttc-cttttatgtttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAG
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taaatgttattacttcttgactc---tgaattctcctgaattttgagttatgtttttttcactattgtcgtgaatgtaatttggacaaatataattcatacagGTCCTTCCACCACTTTGTGCAGAGCTTAGGAATGTGGTGATACAGCCAATGATTTTACCAATGGTTCTAACCATTGCAGAGTCTCAG
upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G22870.1 (Arabidopsis thaliana), 3'ss of exon 7
--------------gtctgtttagtttaatgaatcattcaaatgccttcaattattgcttttggaaggcatgaatagcttcaatgaagagattttccttttatgtttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAG
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gtagtcactttctggattcttttgcgtattctgttacttaacagaaaacaaatcagttactcaagtgatttgcctagtaacaactaatcaaaccaggttttgt----caagcagGTGCTTCCTCCTCTTTGTGCTGAACTTAGGAATTTGGTTATGCAACCAGTGATTCTTCCCATGGTTCTAACTATAGCAGAGTCTCAG
upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 7
gtctgtttagtttaatgaatcattcaaatgccttca----------attattgcttttggaaggcatgaatagcttcaatgaagagattttccttttatgtttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAG
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--gtagtcactttactgacttatcttg-tgtcttgataaaaaaaaagatttgatgctcaaatgatatgtctagcaacaactaagcaaaccatgttttat----catgcagGTGCTTCCACCTCTTTGTGCGGAACTTAGGAATTTAGTTTTGCAACCAATAATCTTGCCAATGGTTCTAACTATAGCACAGTCTCAGMapped 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|29782673|gb|CB348188.2|CB348188EST: ATTATCAGATATGTGG-AAGAATTTTGACTCTCGTGTTTTGCGTTATAAG GTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATG
genomic: ATTATCGGATATGTGGAAAG-ATTTTGACTCTCGTGTTTTGCGTTATAAGgtttgaacca ... tttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggaaggcatgaatagcttcaatgaagagattttccttttatgtttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAG
ttttccttttatgttt CT-rich tract
ttttatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgtttagtttaatgaatcattcaaatgccttcaattattgcttttggaaggcatgaatagcttcaatgaagagattttccttttatgtttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAG
- - - - - - - - - - cattcaa
- - - - - - - - - - - - - - -gccttca
- - - - - - - - - - - - - - - - - - - - - - - - -gaaggca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatgaa