Sequence
atgc intronic sequence ATGC exonic sequence...aagtcagttggctcatgaggtttagaggcttgaatttctactattatggacagcctttgggtccaatctggtcagttcttaacaaatgtccttttttcagGTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACATGCCTAATTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g03320.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os03g17120.1 (Oryza sativa), 3'ss of exon 11
aagtcagttggctcatgaggtttagaggcttgaat-ttctactattatggacagcctttgggtccaatctggtcagttcttaacaaatgtccttttttcagGTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACATGCCTAATTGAG
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-atcttattttcttcttggttgcagagtttttgatgtatttttatttacagcaaactgtacctataaaggaaaaagatgctgacctatttatctcctgtagGTAATGCAAGGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGTCTAATTGAG
upper sequence: Vv08s0040g03320.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G044237_T03 (Zea mays), 3'ss of exon 11
aagtcagttggctcatgaggtttagaggcttgaatttctactattatggacagcctttgggtccaatctggtcagttcttaacaaatgtccttttttcagGTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACATGCCTAATTGAG
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tattgttctcagcaacgcatctctgtaccttagttttgctccctaagccgacactgttttacctgttaagttcatatgctgacttattccttccttgtagGTAATGCAAAGTCTTGCAAAATCCATAGCATGGGATGGTGAGGGTGCAACATGCCTAATTGAG
upper sequence: Vv08s0040g03320.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G05090.1 (Glycine max), 3'ss of exon 11
-----aagtcagttggctcatgag-gtttagaggcttgaatttctactattatggacagcctttgggtccaatctggtcagttcttaacaaatgtccttttttcagGTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACATGCCTAATTGAG
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cctttagatc--ttcttccatggttacctcgagacatgtaatt-tattcttcaaaagtgcct--ggtcagaaaatgtgaagttttgagttgat-tgttctttccagGTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGAGAAGGTGCAACATGCCTCGTTGAG
upper sequence: Vv08s0040g03320.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA13G19450.1 (Glycine max), 3'ss of exon 12
aagtcag--ttggctcatgaggtttagaggcttgaatttctactattatggacagcctttgggtccaatctggtcagttcttaacaaatgtccttttttcagGTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACATGCCTAATTGAG
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--gtcatcctttattccaacctccttcagatgtaagcataatttattcttcaaaagtgcccagtcagaaaatgtgaagttttgagttgattgttctttccagGTAATGCAAGGTCTTGCCAAATCAATAGCTTGGGATGGGGAAGGAGCAACATGCCTCGTTGAG
upper sequence: Vv08s0040g03320.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT2G37500.2 (Arabidopsis thaliana), 3'ss of exon 12
aagtcagttggctcatgaggtttagaggcttgaatttctactattatggacagcctttgggtccaatctggtcagttcttaacaaatgtccttttttcagGTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACATGCCTAATTGAG
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-----------------------gtatgtatgttattttgctatcttcc-taacagttgttcaagagctggac--ttaacatggagcccatctttttcagGTGATGCAAGGACTTGCTAAATCAATAGCTTGGGATGGTGAAGGTGCTACATGTCTCATCGAGMapped 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|122688902|gb|EC927536.1|EC927536EST: CATCTTTGATCAGTCACGAGGCAATACAACTTCAAGCATGCCTTGATGCA GTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACA
genomic: CATCTTTGATCAGTCACGAGGCAATACAACTTCAAGCATGCCTTGATGCAgttagtccaa ... cttttttcagGTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggacagcctttgggtccaatctggtcagttcttaacaaatgtccttttttcagGTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACATGCCTAATTGAG
tcttaac putative branch site (score: 2)
tgtccttttttc putative PPT
ttaacaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagtcagttggctcatgaggtttagaggcttgaatttctactattatggacagcctttgggtccaatctggtcagttcttaacaaatgtccttttttcagGTAATGCAGGGTCTTGCAAAATCAATAGCATGGGATGGAGAAGGAGCAACATGCCTAATTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - cagttgg
- - - - - - tcatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaatct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaaat