Sequence
atgc intronic sequence ATGC exonic sequencegtctactttccatcctcctcacacctcagttattctttatgctaaccgattcttccagatccggtattttattaaaagttgatgagcagGAGCCGAAGCATGAGTCCCAAAAGGACCATGAGTAAGAGTATGAGTATTAGTCCAAGGAGGAGTCTGAGCAAGAGCCCAAGTGTCAGCAGGAGTCAAAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g05090.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA04G07300.2 (Glycine max), 3'ss of exon 11
gtctactttccatcctcctcacacctcagttattctttatgctaaccgattcttccagatccggtattttattaaaagttgatgagcagGAGCCGAAGCATGAGTCCCAAAAGGACCATGAGTAAGAGTATGAGTATTAGTCCAAGGAGGAGT------CTGAGCAAGAGCCCAAGTGTCAGCAGGAGTCAAAGT
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gtctactttcttctttagtcacacctcagttatttcttatgcttaccatttcttccagatctggtattttattgaaagttgatgagcagGAGTCGAAGTGTGAGTCCTAAGCGACCCATCAGTAAGAGTATGAGTATTAGTCCCAGGAGGAGTGCGAGATTGAGCAAGAGCCCAAGTGTTACTCCAAAA------
upper sequence: Vv04s0008g05090.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA06G07380.3 (Glycine max), 3'ss of exon 10
gtctactttccatcctcctcacacctcagttattctttatgctaaccgattcttccagatccggtattttattaaaagttgatgagcagGAGCCGAAGCATGAGTCCCAAAAGGACCATGAGTAAGAGTATGAGTATTAGTCCAAGGAGGAGTCTGAGCAAGAGCCCAAGTGTCA--GCAGGAGTCAAAGT-
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---------------------------------------------------------------gtattttattgaaagttgatgagcaggagTCGAAGCGTGAGTCCTAAGCGACCCATGAGTAAGAGTATGAGTATTAGTCCCAGGAGGAGTGCGAGCAAGAGCCCAAGTGTTACTCCAAAAAGGAGATTG
upper sequence: Vv04s0008g05090.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA04G07300.1 (Glycine max), 3'ss of exon 12
gtctactttccatcctcctcacacctcagttattctttatgctaaccgattcttccagatccggtattttattaaaagttgatgagcagGAGCCGAAGCATGAGTCCCAAAAGGACCATGAGTAAGAGTATGAGTATTAGTCCAAGGAGGAGT------CTGAGCAAGAGCCCAAGTGTCA--GCAGGAGTCAAAGT--------------
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---------------------------------------------------------------gtattttattgaaagttgatgagcaggagtcgaagtgtgagtcctaagCGACCCATCAGTAAGAGTATGAGTATTAGTCCCAGGAGGAGTGCGAGATTGAGCAAGAGCCCAAGTGTTACTCCAAAAAGGAGATTGAGCAAGAGCCCAA
upper sequence: Vv04s0008g05090.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA14G14970.1 (Glycine max), 3'ss of exon 11
gtctactttccatcctcctcacacctcagttattctttatgctaaccgattcttccagatccggtattttattaaaagttgatgagcagGAGCCGAAGCATGAGTCCCAAAAGGACCATGAGTAAGAGTATGAGT---ATTAGTCCAAGGAGGAGTCTGAGCAAGAGCCCAAGTGTCAGCAGGAGTCAAAGT
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gtctactttccattcttgtcacacctcatttatttcttatgcttaccatttcttcaagatcaggcattttatgaaaagttgatgagcagGAATCAAAGCAGGAGCCCCAAGCGAACCATGAGTATGAGTATTAGTCCAAGGAGTGACAGAAAAAGCCCAAGCATTGATCCAAAAAGGAGGTTGAGCAGA---Mapped 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|30297167|gb|CB973961.1|CB973961EST: AGTGCAGAAAGACAACCTGATGTTGTAGATGATCGCCCAGGAAAATCTAG GAGCCGAAGCATGAGTCCCAAAAGGACCATGAGTAAGAGTATGAGTATTAG
genomic: AGTGCAGAAAGACAACCTGATGTTGTAGATGATCACCCAGGAAAATCTAGgtctactttc ... tgatgagcagGAGCCGAAGCATGAGTCCCAAAAGGACCATGAGTAAGAGTATGAGTATTAG
EST:
gi|46917966|gb|CN547295.1|CN547295EST: AGTGCAGAAAGACAACCTGATGTTGTAGATGATCACCCAGGAAAATCTAG GAGCCGAAGCATGAGTCCCAAAAGGACCATGAGTAAGAGTATGAGTATTAG
genomic: AGTGCAGAAAGACAACCTGATGTTGTAGATGATCACCCAGGAAAATCTAGgtctactttc ... tgatgagcagGAGCCGAAGCATGAGTCCCAAAAGGACCATGAGTAAGAGTATGAGTATTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttatgctaaccgattcttccagatccggtattttattaaaagttgatgagcagGAGCCGAAGCATGAGTCCCAAAAGGACCATGAGTAAGAGTATGAGTATTAGTCCAAGGAGGAGTCTGAGCAAGAGCCCAAGTGTCAGCAGGAGTCAAAGT
tattttattaaaagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctactttccatcctcctcacacctcagttattctttatgctaaccgattcttccagatccggtattttattaaaagttgatgagcagGAGCCGAAGCATGAGTCCCAAAAGGACCATGAGTAAGAGTATGAGTATTAGTCCAAGGAGGAGTCTGAGCAAGAGCCCAAGTGTCAGCAGGAGTCAAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA