Sequence
atgc intronic sequence ATGC exonic sequence...caaagaaagcttaaatggggatgaataggtggttgtttttcttttgctatttctattttgagctttccatctgagctaattgggttcaatgcttctccagTGCATAATCAACCATCAGGCTCTCCCTTGCCTTCTGAACCTGTTGACCAATAACCATAAGAAGAGCATCAAGAAGGAAGCTTGTTGGACTATTTCAAATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 7
caaagaaagcttaaatggggat----gaataggtggttgtttttcttttgctatttctattttgagctttccatctgagctaattgggttcaatgcttctccagTGCATAATCAACCATCAGGCTCTCCCTTGCCTTCTGAACCTGTTGACCAATAACCATAAGAAGAGCATCAAGAAGGAAGCTTGTTGGACTATTTCAAATA
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-tatgaaatatctactgtagatcacagcatgaaagttaattgcttttttgacatccatattgccatctcatcatctccccccaccccctt---tttttgtacagTGCATCATTGATCATCAAGCCCTCCCTTGCCTCCTAAGTCTGTTGACACAAAATCTCAAGAAAAGCATCAAGAAAGAGGCTTGCTGGACTATTTCAAATA
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G29000.1 (Glycine max), 3'ss of exon 7
----caaagaaagcttaaatggggatgaataggtggttgtttttcttttgctatttctattttgagctttccatctgagctaattgggttcaatgcttctccagTGCATAATCAACCATCAGGCTCTCCCTTGCCTTCTGAACCTGTTGACCAATAACCATAAGAAGAGCATCAAGAAGGAAGCTTGTTGGACTATTTCAAATA
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attttggaaatgatgtgttctggtatcaaaatatgctttctatgatttta--attttttttttgag-tttcgggttgctttaaccttgtgttttgccccatagGT-TATCATCAATCACCAGGCTCTTCCTTGCCTTCTGAATCTGTTGACCAATAATTATAAAAAAAGCATCAAGAAGGAAGCTTGTTGGACCATATCAAACA
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G38320.1 (Glycine max), 3'ss of exon 7
---caaagaaagcttaaatggggatgaataggtggttgtttttcttttgctatttctattttgagctttccatctgagctaattgggttcaatgcttctccagTGCATAATCAACCATCAGGCTCTCCCTTGCCTTCTGAACCTGTTGACCAATAACCATAAGAAGAGCATCAAGAAGGAAGCTTGTTGGACTATTTCAAATA
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tttctattttggaaatgatgtgtctgg-tatcaaaatatgctttctatgatttattttttttaag-tttctggttgctttaacctagtgttttgccccatagGT-TATCATCAATCACCAGGCTCTTCCTTGCCTTCTTAATCTGTTGACCAATAATTATAAAAAAAGCATCAAGAAGGAAGCTTGTTGGACCATATCCAATA
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S165_54V6.1 (Physcomitrella patens), 3'ss of exon 7
caaagaaagcttaaatggggatgaataggtggttgtttttcttttgctatttctattttgagctttccatctgagctaattgggttcaatgcttct--ccagTGCATAATCAACCATCAGGCTCTCCCTTGCCTTCTGAACCTGTTGACCAATAACCATAAGAAGAGCATCAAGAAGGAAGCTTGTTGGACTATTTCAAATA
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--gacttctattttataccactcgtcccagaatggttcaacttgtgttgactttgttcttgcttgtaactaacatccttcttgtattgttgtcttggatcagTTCATCATCAATAATCAGGCCCTTCCCTGTCTTCTTGCTCTTCTGACCAACAATCACAAGAAAAGTATCAAGAAAGAAGCCTGTTGGACTATTTCCAATA
upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S165_51V6.1 (Physcomitrella patens), 3'ss of exon 7
------------------------------------------caaagaaagcttaaatggggatgaataggtggttgtttt-----tcttttgctatttctattttgagctttccatctgagctaattgggttcaatgcttctc-----cagTGCATAATCAACCATCAGGCTCTCCCTTGCCTTCTGAACCTGTTGACCAATAACCATAAGAAGAGCATCAAGAAGGAAGCTTGTTGGACTATTTCAAATA
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gtatccatacaagatctgaaatcattgcttcgctgtttcttttcaacatttctgcatcaaagttgttcatgtgtatgttacggtcgtcacccattatttcactttccatcccgtcatcagtagtgtttacgtgcgtgtttactgtcgcgcagTTCATCATCGACTGCCAGGCCTTGCCCTGCCTGCTCGCACTATTGACCAACAACCACAAGAAGAGCATTAAGAAAGAAGCATGTTGGACTATCTCCAACAMapped 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|110359173|gb|EC920237.1|EC920237EST: CACTTCGCACGGTTGGAAACATTGTCACTGGAGATGATATGCAAACCCAG TGCATAATCAACCATCAGGCTCTCCCTTGCCTTCTGAACCTGTTGACCAAT
genomic: CACTTCGCACGGTTGGAAACATTGTCACTGGAGATGATATGCAAACCCAGgtattgccca ... gcttctccagTGCATAATCAACCATCAGGCTCTCCCTTGCCTTCTGAACCTGTTGACCAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctatttctattttgagctttccatctgagctaattgggttcaatgcttctccagTGCATAATCAACCATCAGGCTCTCCCTTGCCTTCTGAACCTGTTGACCAATAACCATAAGAAGAGCATCAAGAAGGAAGCTTGTTGGACTATTTCAAATA
agctaat putative branch site (score: 3)
tgcttctcc putative PPT
ttctatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaagaaagcttaaatggggatgaataggtggttgtttttcttttgctatttctattttgagctttccatctgagctaattgggttcaatgcttctccagTGCATAATCAACCATCAGGCTCTCCCTTGCCTTCTGAACCTGTTGACCAATAACCATAAGAAGAGCATCAAGAAGGAAGCTTGTTGGACTATTTCAAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
-aaagaaa
- - - - - - - - ggggatg
- - - - - - - - - - - - - - gtggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatctg