Sequence
atgc intronic sequence ATGC exonic sequence...atgtaacttggttttcaagctagagtgatgtatttattttttattttgtaccttccaatttgttttcaatgaggcaattaatgctttgaaaattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAAGAGCTGCAAAAGTTGCGTTGCCGGGTCAATTATCATGCTTTAAGATTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0229g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G101181_T01 (Zea mays), 3'ss of exon 5
atgtaacttggttttcaagctaga-gtgatgtatttattttttattt-----tgtaccttccaatttgttttcaatgaggcaattaatgctttgaaaattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAAGAGCTGCAAAAGTTGCGTTGCCGGGTCAATTATCATGCTTTAAGATTCA
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--gtgtattaatcataaataaatatatcaggtgtcaagtgactgtagacaaatgcaaagtagacatacttccctattgactgaacagtctt----aatctttgcagGCTTTGCAATTAACAAAGTTTGATTATAGGCTCACTAGCGATCTTGATGAAGATTTGCAAAAGTTACGTTGCCGAGTAAATTTTCATGCTTTAAAATTTA
upper sequence: Vv00s0229g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G15170.1 (Glycine max), 3'ss of exon 5
----------------------------------------------------------------------atgtaacttggttttcaagctagagtgatg-----tatttattttttattttg-taccttccaatttgttttcaatgaggc-aattaatgctttgaaaattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAAGAGCTGCAAAAGTTGCGTTGCCGGGTCAATTATCATGCTTTAAGATTCA
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gtaatgcctctttttatgattaatacatgtttggaatttcttaactatttgactggaaaatgttttgattctgtgaat-gactaccataatgaaatgttagttgttgcttaatgtcagtttagataattctcttttaactttggctgctactgactgacttttgggatattttgcagGTTCTGCAGTTGACAAAATTTGACTATAGACTTGCAAATAATCTTGATGATGAGCTGCAAAAATTACGTTGCCGTGTTAATTATCATGCCTTGAGATTTA
upper sequence: Vv00s0229g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G04720.1 (Glycine max), 3'ss of exon 5
----------------------------------------------------------atgtaacttggttttcaagctagagtgatg-----tatttattttttattttg-----taccttccaa-tttgttttcaatga--ggcaattaatgctttgaaaattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAAGAGCTGCAAAAGTTGCGTTGCCGGGTCAATTATCATGCTTTAAGATTCA
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gtatatcttgatacatgtttgaaatttcttaattatttcactggaaaatggtttgattctgtgaat-gactaccataatgaaatgttagttgttgcttaatgtcagtttagataattctcttgtaacttcggctgcattggttactgactgacttttgggatattttgcagGTTCTGCAATTGACAAAATTTGACTATAGACTTGCGAATAATCTTGATGATGAGCTGCAAAAATTACGTTGCCGTGTTAATTATCATGCTTTGAGATTTA
upper sequence: Vv00s0229g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G03640.1 (Glycine max), 3'ss of exon 6
----------------------------------------------------------------atgtaact-tggttttcaagctagagtgatgtatttattt---tttattttgtaccttccaatttgttttcaatgaggcaattaatgctttgaaaattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAAGAGCTGCAAAAGTTGCGTTGCCGGGTCAATTATCATGCTTTAAGATTCA
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gtatagacacttgttatcgatacatatttgaacttttttaattcactagatgttttgattcattaaataactctcctggtgaagcattagttgctagtttttgtcaatttacagaatgtctctgaatttggctgaggtaac-taactaacatgtaggagattttacagGTTGTTCAATTGACAAAATTTGACTACAGACTTGCAAATAACCTTGATGATGAGCTACAAAAACTACGTTGCCGCGTTAATTTTCATGCTTTGAGATTTA
upper sequence: Vv00s0229g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G41740.1 (Glycine max), 3'ss of exon 5
-----------------------------------------------------------------atgtaact-tggttttcaagctagagtgatgtatttattttttattttgtaccttccaatttgttttcaatgaggcaattaatgctttgaaaattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAAGAGCTGCAAAAGTTGCGTTGCCGGGTCAATTATCATGCTTTAAGATTCA
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gtatgaccagttgtttttgatacatattttaattttttttaattcactagatgttttgattcattaaataactctcatcatgaagcattagttactggttt--ttgtcaatttacagaatgtctctgaatttggctgagataactaacatgtaggaaattttacagGTTGTTCAATTGACAAAATTTGACTACAGACTTGCAAATAACCTTGACAATGAGCTACAGAAACTACGTTGCCGCGTTAATTTTCATGCTTTGAGATTTA
upper sequence: Vv00s0229g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G16650.1 (Arabidopsis thaliana), 3'ss of exon 5
--------------------atgtaacttggttt--tcaagctagagtgatgtatt-tattttttattttgtaccttccaatttgttttcaatgaggcaattaatgctt-tgaaaattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAAGAGCTGCAAAAGTTGCGTTGCCGGGTCAATTATCATGCTTTAAGATTCA
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gtaagactatgtcacctaagaatcaaattgttttagttactttatcaaatagaatcataggtattactattcatctttagttttatcatcttatagctaattcatgtttgttgaaatcttgcagGTTTTACAATTGACAAAGTTTGACTACAGACTAGCAAATGATCTAGATGAAGACATGCAAAAGTTGCGCTGCAGGGTCAACTATCATGCTTTAAGATTCAMapped 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|161706756|gb|FC056366.1|FC056366EST: CTCCTGAATATTATCTGGATCAAGTTCTGCCAATACTCTTGAGGAGACGT GTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAA
genomic: CTCCTGAATATTATCTGGATCAAGTTCTGCCAATACTCTTGAGGAGACGTgtaaggagat ... aattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtaccttccaatttgttttcaatgaggcaattaatgctttgaaaattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAAGAGCTGCAAAAGTTGCGTTGCCGGGTCAATTATCATGCTTTAAGATTCA
aattaat putative branch site (score: 3)
aattaatgctttgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtaacttggttttcaagctagagtgatgtatttattttttattttgtaccttccaatttgttttcaatgaggcaattaatgctttgaaaattttgcagGTTGTACAGTTGACAAAGTTTGATTACAGGCTTGCAAATAACATTGATGAAGAGCTGCAAAAGTTGCGTTGCCGGGTCAATTATCATGCTTTAAGATTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - tcaagct
- - - - - - - - - - - - - - - - - - - - - - - - - ccttcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctttg