Sequence
atgc intronic sequence ATGC exonic sequencegtatatctaatgctaattgaccacccaattatcacttctgtccaattctttatgatgatctcttctaaccatgtgcctgtattgcctatgttgttagATTGCTGTTGATTGTCCAAGAACGGTGCCTGATGTTTCTTTCTTTCAAGAAGAGCAAGTTCAGAAATCCCTGGAGCGCATTCTTTATACCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os09g34040.1 (Oryza sativa), 3'ss of exon 5
gtatatctaatgctaattgaccacccaattatcacttctgtccaattctttatgatgatctcttctaaccatgtgcctgtattgcctatgttgttagATTGCTGTTGATTGTCCAAGAACGGTGCCTGATGTTTCTTTCTTTCAAGAAGAGCAAGTTCAGAAATCCCTGGAGCGCATTCTTTATACCTG
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gtttcccctgactttttcgactttgaatttgcctttttaggt---tccccaatagttcatgtaatcaattatataaactcatggtttcacttgt-agATTGCTGTTGATTGCCCAAGAACTGTGCCAGATGTTACCTTTTTCCAGCACCCTCAAATTCAGAAATCTCTGGAGCGCATTTTGTATACATG
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G42180.1 (Glycine max), 3'ss of exon 5
gtatatctaatgctaattgaccacccaattatcacttctgtccaattctttatgatgat-ctcttctaaccatgtgcctgtattgcctatgttgttagATTGCTGTTGATTGTCCAAGAACGGTGCCTGATGTTTCTTTCTTTCAAGAAGAGCAAGTTCAGAAATCCCTGGAGCGCATTCTTTATACCTG
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------gtattctcaaactataacatatttctaact---ggataggtttggaaaataaggctcttcatttttactacttgcaattttatgattgttagATTGCTGTTGATTGTCCAAGAACTGTGCCTGAAGTTTCATTCTTTCAACAACAGCAAGTTCAGAAATCATTGGAGCGTATTCTGTACACATG
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G03200.1 (Glycine max), 3'ss of exon 5
gtatatctaatgctaattgaccacccaattatcactt--ctgtccaattctttatgatgatctcttctaaccatgtgcctgtattgcctatgttgttagATTGCTGTTGATTGTCCAAGAACGGTGCCTGATGTTTCTTTCTTTCAAGAAGAGCAAGTTCAGAAATCCCTGGAGCGCATTCTTTATACCTG
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------gtattctcaaactataacatatttctaactggattgatggggaaaataaggttctttatttttactacttgcat---ttttatgatttgttagATTGCTGTTGATTGTCCAAGAACTGTACCTGAAGTTTCATTCTTTCAACAACAGCAAGTTCAGAAATCATTGGAGCGTATTCTGTACACATG
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G13330.2 (Glycine max), 3'ss of exon 5
gtatatctaatgctaattgaccacccaattatcacttctgtccaattctttatgatgatctcttctaaccatg--tgcctgtattgcctatgttgttagATTGCTGTTGATTGTCCAAGAACGGTGCCTGATGTTTCTTTCTTTCAAGAAGAGCAAGTTCAGAAATCCCTGGAGCGCATTCTTTATACCTG
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gtattccgaggtttaatatatt--cctatcctaatt--------attcatgaaaataattgtccttgtttttgactgttatcattgtatat-ttgttagATTGGTATTGATTGTCCAAGAACTGTTCCTGATGTTCCATTCTTCCAGCAGCAGCAAGTTCAGAAATCATTGGAACGTATTCTTTATGCATG
upper sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G05350.1 (Glycine max), 3'ss of exon 5
gtatatctaatgctaattgaccacccaattatcacttctgtccaattctttatgatgatctcttctaaccatgtgcctgtattgcctatgttgttagATTGCTGTTGATTGTCCAAGAACGGTGCCTGATGTTTCTTTCTTTCAAGAAGAGCAAGTTCAGAAATCCCTGGAGCGCATTCTTTATACCTG
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gtattcccaggtttaatatattcc-----tatcttaattattcatgaaaatattgtccttgttttttactgt-tgtc---attgtatat-ttgttagATTGGTGTTGATTGTCCAAGAACTGTTCCCGATGTTCCATTCTTCCAGCAGCAGCAAGTTCAGAAATCATTGGAACGTATTCTTTATGCATGMapped 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|71861105|gb|DT010160.1|DT010160EST: ACATTCCAGACACTGAACGCTCGGATGATGAAATCAACATGCTACGCCAG ATTGCTGTTGATTGTCCAAGAACGGTGCCTGATGTTTCTTTCTTTCAAGAA
genomic: ACATTCCAGACACTGAACGCTCGGATGATGAAATCAACATGCTACGCCAGgtatatctaa ... atgttgttagATTGCTGTTGATTGTCCAAGAACGGTGCCTGATGTTTCTTTCTTTCAAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caattctttatgatgatctcttctaaccatgtgcctgtattgcctatgttgttagATTGCTGTTGATTGTCCAAGAACGGTGCCTGATGTTTCTTTCTTTCAAGAAGAGCAAGTTCAGAAATCCCTGGAGCGCATTCTTTATACCTG
ttctaac putative branch site (score: 1)
tttatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatctaatgctaattgaccacccaattatcacttctgtccaattctttatgatgatctcttctaaccatgtgcctgtattgcctatgttgttagATTGCTGTTGATTGTCCAAGAACGGTGCCTGATGTTTCTTTCTTTCAAGAAGAGCAAGTTCAGAAATCCCTGGAGCGCATTCTTTATACCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG