Sequence
atgc intronic sequence ATGC exonic sequence...gtgtactactcagtcgttgaaatagctatagaatgttgttcagatccttcctcatgtgcttaaaatgctgataggagagtcaactaaacttttattgcagACGGGAACTGGTCATTTTTCACCTATTGGTGGTTATCATGCTGGAAGGGACATGGCGCTTATTTTGGATGTTGCACGCTTTAAGTACCCTCCTCACTGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03760.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os06g01260.1 (Oryza sativa), 3'ss of exon 1
gtgtactactcagtcgttgaaatagctatagaatgttgttcagatccttcctcatgtgcttaaaatgctgataggagagtcaactaaacttttattgcagACGGGAACTGGTCATTTTTCACCTATTGGTGGTTATCATGCTGGAAGGGACATGGCGCTTATTTTGGATGTTGCACGCTTTAAGTACCCTCCTCACTGGG
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---------------------gttgtttttgttaatccttctcttcttcatttcaaggtcttaataaccaaccaatttatcattgca--ttgcatttcagACTGGAACCGGCCATTTCTCTCCAATCGGCGGCTACCATGCCGGCCAAGACATGGCGCTTATCCTGGATGTCGCCCGCTTCAAATACCCTCCTCACTGGG
upper sequence: Vv07s0005g03760.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G34950.1 (Glycine max), 3'ss of exon 3
-------------------------------------------gtgtactactcagtcgttgaaatagctatagaatgttgttcagatccttcctcatgtgcttaaaatgctgatagg-agagtcaactaaacttttattgcagACGGGAACTGGTCATTTTTCACCTATTGGTGGTTATCATGCTGGAAGGGACATGGCGCTTATTTTGGATGTTGCACGCTTTAAGTACCCTCCTCACTGGG
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gtatgtgctatggtttgtggaagtttggcataataggaaatatgaaagtttgatagctgattaatttattttggtagacacatttggtgcatatgcttaattctagatggttgaagtgtaaacttgactttgttttcatgacagACGGGAATTGGTCACTTTTCTCCTATCGGAGGGTATCATGTTCGAAGGGACATGGCACTTATTTTGGACGTTGCACGATTTAAGTATCCTCCTCATTGGA
upper sequence: Vv07s0005g03760.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G32200.1 (Glycine max), 3'ss of exon 4
-------------------------------------------gtgtactactcag--tcgttgaaatagctatagaatgttgttcagatccttcct-catgtgcttaaaat--gctgataggagagtcaactaa----acttttattgcagACGGGAACTGGTCATTTTTCACCTATTGGTGGTTATCATGCTGGAAGGGACATGGCGCTTATTTTGGATGTTGCACGCTTTAAGTACCCTCCTCACTGGG
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gtatgtgctatggtttgtggaagtttggcataataggaagtatgaaagctttccaagtttgatagctgatttatgtattttggtagacacatttagtgcatatacttaattctagatggtttgagtgtaagcttgcattgtttttatgacagACGGGAATTGGCCACTTTTCTCCGATTGGAGGGTATCATGTTGGAAGGGACATGGCACTTATTTTGGACGTTGCACGATTTAAGTATCCTCCCCATTGGA
upper sequence: Vv07s0005g03760.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G03980.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------------------gtgtactactcagtcg--ttgaaatagctatagaatgt-----tgttcagatccttcctcatgt-gct-taaaatgc--tgataggagagtcaactaaacttttattgcagACGGGAACTGGTCATTTTTCACCTATTGGTGGTTATCATGCTGGAAGGGACATGGCGCTTATTTTGGATGTTGCACGCTTTAAGTACCCTCCTCACTGGG
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gtatcatttttttggcctaaactctgtgtatattaacagttatatggcaattaagtgaaattcattagacttaatgttattacaaagtttgataatggtgaaactctttcatgtcttgctatgaagtcccatgctgatcggattctaatgtctatgattgcagACTGGAACTGGCCACTTTTCACCTATTGGTGGTTATAATGCTGAAAGAGATATGGCTTTGATTCTTGATGTCGCTCGTTTCAAGTATCCTCCTCACTGGG
upper sequence: Vv07s0005g03760.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G44070.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgtactactcagtcgttgaaatagctatagaatgttgttcagatccttcctcatgtgcttaaaatgctgataggagagtcaactaaacttttattgcagACGGGAACTGGTCATTTTTCACCTATTGGTGGTTATCATGCTGGAAGGGACATGGCGCTTATTTTGGATGTTGCACGCTTTAAGTACCCTCCTCACTGGG
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--------gtaaagcat--aactttgtacacactgttttgctaaggctcagtcatat-tttcaagttttaaaacgtctggtggctata-----attgcagACTGGGACTGGTCACTTTTCACCTATTGGTGGCTATAATGCTGAGAGAGATATGGCTTTGATTCTTGATGTTGCTCGTTTCAAGTATCCCCCTCACTGGGMapped 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|110379966|gb|EC945197.1|EC945197EST: CTGATGATTGTCATGTGATTTCATCATATCACAGAGGAACTTTCAAACAG ACGGGAACTGGTCATTTTTCACCTATTGGTGGTTATCATGCTGGAAGGGAC
genomic: CTGATGATTGTCATGTGATTTCATCATATCACAGAGGAACTTTCAAACAGgtattatcaa ... tttattgcagACGGGAACTGGTCATTTTTCACCTATTGGTGGTTATCATGCTGGAAGGGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttcctcatgtgcttaaaatgctgataggagagtcaactaaacttttattgcagACGGGAACTGGTCATTTTTCACCTATTGGTGGTTATCATGCTGGAAGGGACATGGCGCTTATTTTGGATGTTGCACGCTTTAAGTACCCTCCTCACTGGG
aactaaa putative branch site (score: 2)
cttttatt CT-rich tract
aactaaacttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtactactcagtcgttgaaatagctatagaatgttgttcagatccttcctcatgtgcttaaaatgctgataggagagtcaactaaacttttattgcagACGGGAACTGGTCATTTTTCACCTATTGGTGGTTATCATGCTGGAAGGGACATGGCGCTTATTTTGGATGTTGCACGCTTTAAGTACCCTCCTCACTGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - gaaatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aactaaa