Sequence
atgc intronic sequence ATGC exonic sequence...tcaaagaaaatgcagttagtttgatgtgaattgctaaaagtttccaagaaaatcaaggctctaactgcatggtttccattttttttgttgatttaatcagTGAATCAAGGTCTGGCAACTCTAGCATTCTTCGGGGTTGGGGTGAACTTGGTGCTGTTCCTGACCAGGGTCTTACAACAAAACAATGCTGATGCTGCTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g01160.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g46460.2 (Oryza sativa), 3'ss of exon 1
--tcaaagaaaatgcagttagtttgatgtgaattgctaaaagtttccaagaaaatcaaggctctaactgcatggtttccattttttttgt-tgatttaatcagTGAATCAAGGTCTGGCAACTCTAGCATTCTTCGGGGTTGGGGTGAACTTGGTGCTGTTCCTGACCAGGGTCTTACAACAAAACAATGCTGATGCTGCTAA
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agttaagcggcgcactgtttgcatg-tgtgcatcgttttatgtttgtttagaatt--attcttgaaggccttgacacctttttattttgtgtgtgttgtgcagTGAACCAGGGTCTGGCAACCCTGGCGTTCTTCGGGGTAAACGTGAACCTGGTGTTGTTCCTGACGAGGGTGCTGCAGCAGAGCAACGGCGACGCCGCCAA
upper sequence: Vv02s0012g01160.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G16410.1 (Glycine max), 3'ss of exon 2
-----tcaaagaaaatgcagttagtttgatgtgaattgctaaaagtttccaagaaaatcaaggctctaactgcatggtttccattttttttgttgatttaatcagTGAATCAAGGTCTGGCAACTCTAGCATTCTTCGGGGTTGGGGTGAACTTGGTGCTGTTCCTGACCAGGGTCTTACAACAAAACAATGCTGATGCTGCTAA
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catttttaatgcatatgcacaaggatgcatgtgagtgtattcatataacgcggtctactata---ctaatgacactgctt--attttcttgattgcatcaatcagTGAACCAAGGTCTGGCAACCTTAGCATTCTTTGGAGTAGGGGTGAACCTAGTGCTGTTCCTGACAAGAGTGATGGGGCAAGATAATGCTGAAGCTGCAAA
upper sequence: Vv02s0012g01160.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G40850.1 (Glycine max), 3'ss of exon 2
tcaaagaaa-atgca-gttagtttgatgtgaattgctaaaagtttccaagaaaatcaaggctctaactgcatggtttccattttttttgttgatttaatcagTGAATCAAGGTCTGGCAACTCTAGCATTCTTCGGGGTTGGGGTGAACTTGGTGCTGTTCCTGACCAGGGTCTTACAACAAAACAATGCTGATGCTGCTAA
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tcaatgatgcatgcgtgtatatgtaattcacgtggttcacaatatt-gagaacat-gttgctaatgcttcttgttctgtaatttgttgattgcattaatcagTGAACCAAGCTCTGGCAACTCTTGCATTTTTTGGGATTGGAGTGAACCTAGTGTTGTTTCTGACAAGGGTGGTAGGACAAAACAATGCTGATGCAGCCAA
upper sequence: Vv02s0012g01160.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G06130.1 (Glycine max), 3'ss of exon 2
-tcaaagaaaatgcagttagtttga-tgtgaattgctaaaagtttccaagaaaatcaaggctctaactgcatggtttccattttttttgttgatttaatcagTGAATCAAGGTCTGGCAACTCTAGCATTCTTCGGGGTTGGGGTGAACTTGGTGCTGTTCCTGACCAGGGTCTTACAACAAAACAATGCTGATGCTGCTAA
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tttaaatacacaaggatgcatgtgagtgtattcaaataacggtttacaatactaatagcacaatgctgacactgctt--attttcttgattgcatcaaacagTGAACCAAGGTCTGGCAACCTTAGCATTCTTTGGAGTAGGGGTTAACCTAGTGCTGTTCCTGACAAGAGTGATGGGGCAAAATAATGCTGCAGCTGCAAAMapped 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|161710147|gb|FC061045.1|FC061045EST: TGCAATCCGATCAAGGAGTGGAAAATGGTTTGCAGGAATCATCATACTCT TGAATCAAGGTCTGGCAACTCTAGCATTCTTCGGGGTTGGGGTGAACTTGG
genomic: TGCAATCCGATCAAGGAGTGGAAAATGGTTTGCAGGAATCATCATACTCTgtaagctcca ... atttaatcagTGAATCAAGGTCTGGCAACTCTAGCATTCTTCGGGGTTGGGGTGAACTTGG
EST:
gi|351017686|gb|FQ436039.1|FQ436039EST: TGCAATCCGATCAAGGAGTGGAAAATGGTTTGCAGGAATCATCATACTCT TGAATCAAGGTCTGGCAACTCTAGCATTCTTCGGGGTTGGGGTGAACTTGG
genomic: TGCAATCCGATCAAGGAGTGGAAAATGGTTTGCAGGAATCATCATACTCTgtaagctcca ... atttaatcagTGAATCAAGGTCTGGCAACTCTAGCATTCTTCGGGGTTGGGGTGAACTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagaaaatcaaggctctaactgcatggtttccattttttttgttgatttaatcagTGAATCAAGGTCTGGCAACTCTAGCATTCTTCGGGGTTGGGGTGAACTTGGTGCTGTTCCTGACCAGGGTCTTACAACAAAACAATGCTGATGCTGCTAA
attttttttgttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaaagaaaatgcagttagtttgatgtgaattgctaaaagtttccaagaaaatcaaggctctaactgcatggtttccattttttttgttgatttaatcagTGAATCAAGGTCTGGCAACTCTAGCATTCTTCGGGGTTGGGGTGAACTTGGTGCTGTTCCTGACCAGGGTCTTACAACAAAACAATGCTGATGCTGCTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- -aagaaaa
- - - - - tgcagtt
- - - - - - - - - - -tgatgtg
- - - - - - - - - - - - - - - - -ctaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatgg