Sequence
atgc intronic sequence ATGC exonic sequence...ggacattgctactgaaacgacatttttttttatgtttctacatgccctagttgtgcatcctgaacaaaagtttgatgcttccaatctttcctcttttcagTGTATTATAAACTATGGAGCTCTTCCTTGCCTTTTGAACCTGTTGTCACATAATTACAAGAAAAGCATCAAGAAGGAGGCTTGCTGGACCATCTCAAACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 7
--ggacattgctactgaaacgacatttttttttatgtttctacatgccctagttgtgcatcctgaacaaaagtttgatgcttccaatctttcctctttt-cagTGTATTATAAACTATGGAGCTCTTCCTTGCCTTTTGAACCTGTTGTCACATAATTACAAGAAAAGCATCAAGAAGGAGGCTTGCTGGACCATCTCAAACA
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tatgaaatatctactgta--gatcacagcatgaaagttaat-tgcttttttgacatccatattgccatctcatcatctccccccaccccctttttttgtacagTGCATCATTGATCATCAAGCCCTCCCTTGCCTCCTAAGTCTGTTGACACAAAATCTCAAGAAAAGCATCAAGAAAGAGGCTTGCTGGACTATTTCAAATA
upper sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G02150.1 (Arabidopsis thaliana), 3'ss of exon 7
ggacattgctactgaaacgacatttttttttatgtttc-tacatgccctagttgtgcatcctgaacaaaagtttgatgcttccaatctttcctctt--ttcagTGTATTATAAACTATGGAGCTCTTCCTTGCCTTTTGAACCTGTTGTCACATAATTACAAGAAAAGCATCAAGAAGGAGGCTTGCTGGACCATCTCAAACA
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-------------------------gtgcatataatacattcaccattcgatttcgagtttt---cagaagca-aatgtctctaacttattttcctaacacagATGGTTCTCGACCAGCAAGCGCTTCCTTGTCTTTTGAACCTTCTAAAAAACAATTACAAGAAGAGTATCAAGAAGGAAGCTTGCTGGACTATCTCCAACA
upper sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G02690.2 (Arabidopsis thaliana), 3'ss of exon 7
ggacattgcta-ctgaaacgacatttttttttatgtttctacatgccctagttgtgcatcctgaacaaaagtttgatgcttccaatctttcctcttttcagTGTATTATAAACTATGGAGCTCTTCCTTGCCTTTTGAACCTGTTGTCACATAATTACAAGAAAAGCATCAAGAAGGAGGCTTGCTGGACCATCTCAAACA
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gtagtctattatccgtaactgt-ctgccttttatatctcc-tatagttttgatgttta-cttaagtaaatcatctctgttt--------tctccataacagGCGGTTATTAGCAGTCAAGCGCTTCCTGGTCTGTTAAACCTTTTGAAGAACACATACAAGAAGAGTATCAAGAAGGAAGCTTGCTGGACTATCTCTAACA
upper sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ38593 (Selaginella moellendorffii), 3'ss of exon 7
ggacattgctactgaaacgacatttttttttatgtttctacatgccctagttgtg-catcctgaacaaaagtttgatgcttccaatctttcctcttttcagTGTATTATAAACTATGGAGCTCTTCCTTGCCTTTTGAACCTGTTGTCACATAATTACAAGAAAAGCATCAAGAAGGAGGCTTGCTGGACCATCTCAAACA
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---------------------------------------gtaaacttgaaacggaacatcctagatgtt--tcttacgcttgcc-tttaaatttatttcagTTCATCATAAACAATGGAGCGCTGCCATATTTGTTACATCTTCTCACCAATGTTTACAAGAAGAGCATAAAAAAGGAGGCTTGCTGGACAATCTCGAACA
upper sequence: Vv07s0005g01100.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ31557 (Selaginella moellendorffii), 3'ss of exon 7
ggacattgctactgaaacgacatttttttttatgtttctacatgccctagttgtg-catcctgaacaaaagtttgatgcttccaatctttcctcttttcagTGTATTATAAACTATGGAGCTCTTCCTTGCCTTTTGAACCTGTTGTCACATAATTACAAGAAAAGCATCAAGAAGGAGGCTTGCTGGACCATCTCAAACA
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---------------------------------------gtaaacttgaaacggaacatcctagatatt--tcttacgcctgtctttaaatttatttccagTTTATCATAAACAATGGAGCGCTGCCATATTTGTTACATCTTCTTACCAATGTTTACAAGAAGAGCATAAAAAAGGAGGCTTGCTGGACAATCTCGAACAMapped 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|110397066|gb|EC962784.1|EC962784EST: CCCTTCGCACAGTTGGAAATATTGTTACTGGGGATGATATCCAAACTCAG TGTATTATAAACTATGGAGCTCTTCCTTGCCTTTTGAACCTGTTGTCACAT
genomic: CCCTTCGCACAGTTGGAAATATTGTTACTGGGGATGATATCCAAACTCAGgtactataca ... ctcttttcagTGTATTATAAACTATGGAGCTCTTCCTTGCCTTTTGAACCTGTTGTCACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctagttgtgcatcctgaacaaaagtttgatgcttccaatctttcctcttttcagTGTATTATAAACTATGGAGCTCTTCCTTGCCTTTTGAACCTGTTGTCACATAATTACAAGAAAAGCATCAAGAAGGAGGCTTGCTGGACCATCTCAAACA
gtttgat putative branch site (score: 5)
tgcttccaatctttcc CT-rich tract
aaaagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggacattgctactgaaacgacatttttttttatgtttctacatgccctagttgtgcatcctgaacaaaagtttgatgcttccaatctttcctcttttcagTGTATTATAAACTATGGAGCTCTTCCTTGCCTTTTGAACCTGTTGTCACATAATTACAAGAAAAGCATCAAGAAGGAGGCTTGCTGGACCATCTCAAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - -ttgctac
- - - - - - -gaaacga
- - - - - - - - - - - - - - - - - - - - catgccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - gcatcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttcca