Sequence
atgc intronic sequence ATGC exonic sequencegtaaggaactattaatagaaactataaaacagtaaacctcatttttcgatccatttgattatatttatagcttattcacaaaaaaaaaaaggcttgatcatgtttgttctgtgcatctagATGATGGGTTTCGGCTTACTTACCTTGGATATGATTTTCTTGCAATAAAGACTCTGGTTAATCGTGGAGTATTTGTAGCTGTTGGTCGTCAAATTGGTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g66520.1 (Oryza sativa), 3'ss of exon 3
gtaaggaactattaatagaaactataaaacagtaaacctcatttttcgatccatttgattatatttatagcttattcacaaaaaaaaaaaggcttgatcatgtttgttc-tgtgcatctagATGATGGGTTTCGGCTTACTTACCTTGGATATGATTTTCTTGCAATAAAGACTCTGGTTAATCGTGGAGTATTTGTAGCTGTTGGTCGTCAAATTGGTGT
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-------------------------------------gtgagttctcgatgc--tgaaatttacttttagatgaaaatttgggttaacatagctgctttttgctggtctgtctggacgcagATGATGGTTATCGGCTCACATATCTTGGGTATGATTTCCTCGCCATCAAAACCTTGGTTAATCGTGGAGTATTTGCTTCAGTTGGTCGGCAAATTGGTGT
upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 3
----------gtaaggaact-attaatagaaactataaaacagtaaacctcatttttcgatccatttgattatatttatagcttattcacaaaaaaaaaaaggcttgatcatgtttgttctgtgcatctagATGATGGGTTTCGGCTTACTTACCTTGGATATGATTTTCTTGCAATAAAGACTCTGGTTAATCGTGGAGTATTTGTAGCTGTTGGTCGTCAAATTGGTGT-
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ttagtaccttctaatctgtttattattatatttagtaaaaaggaaaatctaatata--aatatatagaagttcatttgaa--tgaccctctaatatgtgagagcttaatttgattt------------tagaTGATGGGTTCCGCCTTACCTACCTTGGTTATGATTTTCTTGCCATTAAGACTATGGTGAACAAAGGAGTGTTTGTAGCTGTTGGACGCCAGATTGGTGTT
upper sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G33320.1 (Glycine max), 3'ss of exon 3
gtaaggaactattaatagaaactataaaacagtaaacctcatttttcgatccatttgattatatttatagcttattcacaaaaaaaaaaaggcttgatcatgtttgttctgtgcatctagATGATGGGTTTCGGCTTACTTACCTTGGATATGATTTTCTTGCAATAAAGACTCTGGTTAATCGTGGAGTATTTGTAGCTGTTGGTCGTCAAATTGGTGT
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------------tcatagtaaaaa-aaaattgtgatcataatcat---aatgatataaatatattga-agttcatttgaatgaccgtctaatatgtgagagatttatt---tacttttagATGATGGATTCCGCCTTACCTACCTTGGTTATGATTTTCTTGCCATTAAGACTATGGTGAACAAAGGAGTGTTTGTGGCTGTTGGACGTCAGATTGGCGTMapped 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|110427485|gb|EC993924.1|EC993924EST: CTTGAAGAACTTGCTCAAGTATAAGCTTTTGCACCATGACTCTTCAAAAT ATGATGGGTTTCGGCTTACTTACCTTGGATATGATTTTCTTGCAATAAAGA
genomic: CTTGAAGAACTTGCTCAAGTATAAGCTTTTGCACCATGACTCTTCAAAATgtaaggaact ... gtgcatctagATGATGGGTTTCGGCTTACTTACCTTGGATATGATTTTCTTGCAATAAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatagcttattcacaaaaaaaaaaaggcttgatcatgtttgttctgtgcatctagATGATGGGTTTCGGCTTACTTACCTTGGATATGATTTTCTTGCAATAAAGACTCTGGTTAATCGTGGAGTATTTGTAGCTGTTGGTCGTCAAATTGGTGT
gcttgat putative branch site (score: 5)
ttattcacaaaaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggaactattaatagaaactataaaacagtaaacctcatttttcgatccatttgattatatttatagcttattcacaaaaaaaaaaaggcttgatcatgtttgttctgtgcatctagATGATGGGTTTCGGCTTACTTACCTTGGATATGATTTTCTTGCAATAAAGACTCTGGTTAATCGTGGAGTATTTGTAGCTGTTGGTCGTCAAATTGGTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT