Sequence
atgc intronic sequence ATGC exonic sequence...gcataaaaattgtttgctaactcattttactttattttattttttatttattttcctagggaagtgtttgctaaccgattctatatcttcatacctgcagCACAAGAACCGGCAAGTCAATTTAGAGCTGTGGAGAGAAGCTCAAGCATATGGAGACATCCAGTTGATGCCTTTTGTTGATTATTACAGCCTTATCAGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g00400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G160958_T01 (Zea mays), 3'ss of exon 3
gcataaaaattgtttgctaactcatttt--actttattttattttttatttattttcctagggaagtgtttgctaaccgattctatatcttcatacctgcagCACAAGAACCGGCAAGTCAATTTAGAGCTGTGGAGAGAAGCTCAAGCATATGGAGACATCCAGTTGATGCCTTTTGTTGATTATTACAGCCTTATCAGTT
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-aactgagattgttgtctgatctgctttccatattcagttattcttgacgtgatatattctacttttattcacaacatctatctttatgcctaaaa-tgcagCACAAGAATGAGCAAGTCAATATGGAGTTATGGAGAGAGGCTCAATTATATGGTGATATCCAATTGATGCCCTTCGTTGACTACTATACTTTGATCACTT
upper sequence: Vv05s0020g00400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G04230.1 (Glycine max), 3'ss of exon 3
--gcat-aaaaattgtttgctaactcattttactttattttattttttatttattttcctagggaagtgtttgctaaccgattctatatcttcatacctgcagCACAAGAACCGGCAAGTCAATTTAGAGCTGTGGAGAGAAGCTCAAGCATATGGAGACATCCAGTTGATGCCTTTTGTTGATTATTACAGCCTTATCAGTT
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ctccaccaagcattctgcattatagcagtttttttttaaaaaatattttcttctcttaacaaaaaattgttgggtgac--atcttattttatt-tgattgcagCACAAGAACAATAGGGTTAATTTTGAGTTATGGACTGAAGCTCAAGCATATGGAGATATTCAGTTAATGCCTTTTGTAGATTATTATAGTTTGATTTCTT
upper sequence: Vv05s0020g00400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G06440.1 (Arabidopsis thaliana), 3'ss of exon 4
gcataaaaattgtttgctaactcattttactttattttattttttatttattttcctagggaagtgtttgctaaccgattctatatcttcatacctgcagCACAAGAACCGGCAAGTCAATTTAGAGCTGTGGAGAGAAGCTCAAGCATATGGAGACATCCAGTTGATGCCTTTTGTTGATTATTACAGCCTTATCAGTT
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--gtaagtacc-tctgcaagctaacattcctcc--ttggatttatacatatctt--------agcattaacttggcgtttcttttact---------cagCACACAAATGAAAAAGTCAATTTAGAGATGTGGAGAGAATCTAAGGCATATGGAGACATTCAGTTTATGCCATTTGTTGACTACTATGGTTTACTTAGCTMapped 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|161708316|gb|FC057475.1|FC057475EST: ACGAAGCTGTACGTTCTGGCGATGTGGCTGTTCGCTTTTTCATTGGTCTT CACAAAGAACCGGCAAGTCAATT
genomic: ACGAAGCTGTACGTTCTGGCGATGTGGCTGTTCGCTTTTTCATTGGTCTTgtaagtagca ... atacctgcagCACAA-GAACCGGCAAGTCAATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttattttcctagggaagtgtttgctaaccgattctatatcttcatacctgcagCACAAGAACCGGCAAGTCAATTTAGAGCTGTGGAGAGAAGCTCAAGCATATGGAGACATCCAGTTGATGCCTTTTGTTGATTATTACAGCCTTATCAGTT
tgctaac putative branch site (score: 1)
tcttcat putative PPT
attctatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcataaaaattgtttgctaactcattttactttattttattttttatttattttcctagggaagtgtttgctaaccgattctatatcttcatacctgcagCACAAGAACCGGCAAGTCAATTTAGAGCTGTGGAGAGAAGCTCAAGCATATGGAGACATCCAGTTGATGCCTTTTGTTGATTATTACAGCCTTATCAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- ataaaaa
- - - - - tgtttgc
- - - - - - - - - aactcat