Sequence
atgc intronic sequence ATGC exonic sequencegtaagttatgtattgtttgatatgcttcttattttcccagttatattcattgttctcttaattttatatcattctgatgctaacaaagtgcttccattcacattccttttccaagTCCTGAGACACACCTCCTACATCATGAGCTACTTAACTTCATGCTCATCGTGATGTCAACTCAGCTTCTTTCTGGGCCATCTCCAGGACCAAAAGATGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G38920.2 (Glycine max), 3'ss of exon 3
gtaagttatgtattgtttgatatgcttcttattttcccagttatattcattgttctcttaattttatatcattctgatgctaacaaagtgcttccattcacattccttttccaagTCCTGAGACACACCTCCTACATCATGAGCTACTTAACTTCATGCTCATCGTGATGTCAACTCAGCTTCTTTCTGGGCCATCTCCAGGACCAAAAGATGTG
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---------gtatatcatgactcatgagtaatttgacctgcta-attc-ttgttgagttattgagcaatctattttgtcctgacaagtgacaatttattattatcattattatagTCCCGACACATTTCTCCTACATCTAGAGCTGCTTAATTTCATGATTATTGCAATGTCAACTCAACTTCTCTGTGGGCCATCTCCTGGACCAAATGATGTG
upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G28880.1 (Glycine max), 3'ss of exon 3
gtaagttatgtattgtttgatatgcttcttattttcccagttatattcattgttctcttaattttatatcattctgatgctaacaaagtgcttccattcacattccttttccaagTCCTGAGACACACCTCCTACATCATGAGCTACTTAACTTCATGCTCATCGTGATGTCAACTCAGCTTCTTTCTGGGCCATCTCCAGGACCAAAAGATGTG
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-----gtatatcatgactcatgagtaatttgacctgctaatt---cttggtgagttattgagc--aaactattttt-tcctgacaagtgaaatttattattattgt-------agTCCCGACACATTTCTCCTACATCTAGAGCTGCTTAATTTCATGATTATTGGAATGTCAACTCAACTTCTCTGTGGGCCATCTCCTGGACCAAATGATGTG
upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G00550.1 (Glycine max), 3'ss of exon 3
gtaagttatgtattgtttgatatgcttcttattttcccagttatattcattgttctcttaattttatatcattctgatgctaacaaagtgcttccattcacattccttttccaagTCCTGAGACACACCTCCTACATCATGAGCTACTTAACTTCATGCTCATCGTGATGTCAACTCAGCTTCTTTCTGGGCCATCTCCAGGACCAAAAGATGTG
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-----gtatatcatggataacaaactggttaatt-----gtcgtggttattgtctgc--aagctttttttgccctgatgatat--atgttgttttatt---at----------agCCCCAACACATATTTCCTACATCTGGAGCTGCTTAATTTTATGATTATTGCAATCTCAACTCAGCTTCTTTGTGGGCCATCTCCTGGACCGAATGATGTG
upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G24080.1 (Glycine max), 3'ss of exon 4
gtaagttatgtattgtttgatatgcttcttattttccca--gttatattcattgttctcttaattttatatcattctgatgctaacaaagtgcttccattcacattccttttccaagTCCTGAGACACACCTCCTACATCATGAGCTACTTAACTTCATGCTCATCGTGATGTCAACTCAGCTTCTTTCTGGGCCATCTCCAGGACCAAAAGATGTG
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gtatatcatggataaca-aattggtaaattgttgtcggactgtcagagttattgtctga--aactgcaaactttttttcccctgatgatatatattgttttatttt---------agCCCCAACACATATTTCCTACATCTGGAGCTGCTTAATTTTATGATTATTGCAATGTCAACTCAGCTTCTTCGTGGGCCATCTCCTGGACCGAATGATGTGMapped 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|352769603|gb|FQ468531.1|FQ468531EST: AACTTTGTTATGCACGGTGTGCTTAGTTTTATTGGCACCTTGGATGTAAA TCCTGAGACACACCTCCTACATCATGAGCTACTTAACTTCATGCTCATCGT
genomic: AACTTTGTTATGCACGGTGTGCTTAGTTTTATTGGCACCTTGGATGTAAAgtaagttatg ... cttttccaagTCCTGAGACACACCTCCTACATCATGAGCTACTTAACTTCATGCTCATCGT
EST:
gi|352780977|gb|FQ466290.1|FQ466290EST: AACTTTGTTATGCACGGTGTGCTTAGTTTTATTGGCACCTTGGATGTAAA TCCTGAGACACACCTCCTACATCATGAGCTACTTAACTTCATGCTCATCGT
genomic: AACTTTGTTATGCACGGTGTGCTTAGTTTTATTGGCACCTTGGATGTAAAgtaagttatg ... cttttccaagTCCTGAGACACACCTCCTACATCATGAGCTACTTAACTTCATGCTCATCGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttatatcattctgatgctaacaaagtgcttccattcacattccttttccaagTCCTGAGACACACCTCCTACATCATGAGCTACTTAACTTCATGCTCATCGTGATGTCAACTCAGCTTCTTTCTGGGCCATCTCCAGGACCAAAAGATGTG
tgctaac putative branch site (score: 1)
cttccattcacattcc putative PPT
atatcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttatgtattgtttgatatgcttcttattttcccagttatattcattgttctcttaattttatatcattctgatgctaacaaagtgcttccattcacattccttttccaagTCCTGAGACACACCTCCTACATCATGAGCTACTTAACTTCATGCTCATCGTGATGTCAACTCAGCTTCTTTCTGGGCCATCTCCAGGACCAAAAGATGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG