Sequence
atgc intronic sequence ATGC exonic sequence...ttgtttagatcaattactgaatgttccaaattacaaaattctcacaagtctgttgctctaaatgtcttatctcttattgttcttgttcttgtatatgcagTATGTGCATTTCCTTCAACGGAAGTATTCACTTAGTTCTTTCAACCTATTGGGACATACTGCCCCAGCCCAGGCTGGATCGCTGCTTTTATTAGGCCCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G08700.1 (Glycine max), 3'ss of exon 4
ttgtttagatcaattactgaatgttccaaattacaaaattctcacaagtctgttgctctaaatgt---cttatctcttattgttctt--gttcttgtatatgcagTATGTGCATTTCCTTCAACGGAAGTATTCACTTAGTTCTTTCAACCTATTGGGACATACTGCCCCAGCCCAGGCTGGATCGCTGCTTTTATTAGGCCCCT
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--cctgctgtttacacttgagtgtt---aattactgtattaatctgaattttatcttattaatttgtacttggtactcatggattttcaaatcttttatgtgcagTATGTTCATTTCCTTCAACGGAAGTATTCTCTAAGTTCTTTCAACCTGTTGGGACATACAGCACCTGCACAGGCTGCATCACTACTGTTATTAGGACCTT
upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G27820.1 (Glycine max), 3'ss of exon 3
ttgtttagatcaattactgaatgttcca--aattacaaaattctcacaagtctgttgctctaaatgt---cttatctcttattgttctt--gttcttgtatatgcagTATGTGCATTTCCTTCAACGGAAGTATTCACTTAGTTCTTTCAACCTATTGGGACATACTGCCCCAGCCCAGGCTGGATCGCTGCTTTTATTAGGCCCCT
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-------ggcctgctgtttactcttgtgttaattactgtcttaatctgaattttatcttattaatttgtacctggtactcatggattttcaaatcttttatgtgcagTATGTTCATTTCCTTCAACGGAAGTATTCTCTAAGTTCTTTCAATCTATTGGGACATACAGCACCTGCACAGGCTGCATCACTACTGTTATTAGGACCTT
upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G36620.1 (Glycine max), 3'ss of exon 3
----ttgtttagatcaattactgaatgttccaaattacaaaattctcacaagtctgttgctctaaatgtcttatctcttattgttcttgttcttgtatatgcagTATGTGCATTTCCTTCAACGGAAGTATTCACTTAGTTCTTTCAACCTATTGGGACATACTGCCCCAGCCCAGGCTGGATCGCTGCTTTTATTAGGCCCCT
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gcagcactcctgttctgtaaattggtattaggtgtttcaa---tctgattgtttttttttattcagtgatttatcaatgaaatttcaaatgttt-catgtgcagTATGTTCATTTCCTTCAACGAAAGTATTCACTAAGTTCTTTCAACCTTTTGGGACACACAGCACCTGCACAAGCTGCATCACTACTTTTGTTAGGCCCTG
upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G34020.1 (Arabidopsis thaliana), 3'ss of exon 4
ttgtttagatcaattactgaatgttccaaattacaaaattctcacaagtctgttgctctaaatgtcttatctct--tattgttcttgttcttgtat-atgcagTATGTGCATTTCCTTCAACGGAAGTATTCACTTAGTTCTTTCAACCTATTGGGACATACTGCCCCAGCCCAGGCTGGATCGCTGCTTTTATTAGGCCCCT
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----------------gtaagtgttctgtgctcttacggagtaacatatc-gtttctttgtttaagataatactaatattggtgtggtttttacatgatgcagTATGTACATTACCTTCAGCGCAAGTACTCGCTTAACTCATTCAACCTATTGGGACATACCGCTCCAGCCCAAGCCGCAACATTACTGGTAGTTGGCCCGTMapped 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|110393433|gb|EC958668.1|EC958668EST: GTTTCATTGCTGCCTTTATTGCAGTTTGGAGCACTTCTCTGCAACAGTAT TATGTGCATTTCCTTCAACGGAAGTATTCACTTAGTTCTTTCAACCTATTG
genomic: GTTTCATTGCTGCCTTTATTGCAGTTTGGAGCACTTCTCTGCAACAGTATgtaagttttc ... gtatatgcagTATGTGCATTTCCTTCAACGGAAGTATTCACTTAGTTCTTTCAACCTATTG
EST:
gi|161709701|gb|FC060180.1|FC060180EST: GTTTCATTGCTGCCTTTATTGCAGTTTGGAGCACTTCTCTGCAACAGTAT TATGTGCATTTCCTTCAACGGAAGTATTCACTTAGTTCTTTCAACCTATTG
genomic: GTTTCATTGCTGCCTTTATTGCAGTTTGGAGCACTTCTCTGCAACAGTATgtaagttttc ... gtatatgcagTATGTGCATTTCCTTCAACGGAAGTATTCACTTAGTTCTTTCAACCTATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtctgttgctctaaatgtcttatctcttattgttcttgttcttgtatatgcagTATGTGCATTTCCTTCAACGGAAGTATTCACTTAGTTCTTTCAACCTATTGGGACATACTGCCCCAGCCCAGGCTGGATCGCTGCTTTTATTAGGCCCCT
ctctaaa putative branch site (score: 3)
ttcttgt putative PPT
ttattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtttagatcaattactgaatgttccaaattacaaaattctcacaagtctgttgctctaaatgtcttatctcttattgttcttgttcttgtatatgcagTATGTGCATTTCCTTCAACGGAAGTATTCACTTAGTTCTTTCAACCTATTGGGACATACTGCCCCAGCCCAGGCTGGATCGCTGCTTTTATTAGGCCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - ctgaatg
- - - - - - - - - - - - -ccaaatt
- - - - - - - - - - - - - - - - acaaaat
- - - - - - - - - - - - - - - - - - - - ctcacaa
- - - - - - - - - - - - - - - - - - - - - - - - - tgttgct