Sequence
atgc intronic sequence ATGC exonic sequence...cagacacaactggttcagttggtagcatttttcttactgggcattggatatattctcattttgtattgttgcttggcatctaaagtctgttgtttcccagGGATTCAGCCTAGTGCTTGTGCAGCACAAAGAAAAGGATTTCCTTGTTGCATTTGGGGGAACCAAAAAGGAGCCATCAAATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA17G02680.1 (Glycine max), 3'ss of exon 10
cagacacaactggttcagttggtagcatttttcttactgggcattggatatattctcattttgtattgttgcttggcatctaaagtctgttgt-ttcccagGGATTCAGCCTAGTGCTTGTGCAGCACAAAGAAAAGGATTTCCTTGTTGCATTTGGGGGAACCAAAAAGGAGCCATCAAATGAG
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------------------------------gtatgcatggccatcc----tttcttcatgataaattgaaactatgtttataagatctgttgaattaccagGGTTTCAGCATGGTACTCGTGCAGCACAAGGAAAAGGATTTTCTTGTTGCATTTGGGGGATCCAAAAAAGAGCCATCAAATCAG
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA15G10310.1 (Glycine max), 3'ss of exon 13
cagacacaactggttcagttggtagcatttttcttactgggcattggatatattctcattttgtattgtt-----gcttggcatctaaagtctgttgt-ttcccagGGATTCAGCCTAGTGCTTGTGCAGCACAAAGAAAAGGATTTCCTTGTTGCATTTGGGGGAACCAAAAAGGAGCCATCAAATGAG
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----atctcctgcattagcagattttgtttgtatgcttgaccatccctttgaccct--ttctgcagtgtttaaaaagcatgtttataatatctgtaatgttagcagGGTTTTAGCGTAGCACTTGTGCAACACAAGGATAAAGATTTCCTTGTTGCATTTGGGGGATCCAAAAAGGAGCCATCAAATCAG
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA07G38020.1 (Glycine max), 3'ss of exon 11
cagacacaactggttcagttggtagcatt-tttcttactgggcattggatatattct-cattttgtattgttgcttggcatctaaagtctgttgt-ttcccagGGATTCAGCCTAGTGCTTGTGCAGCACAAAGAAAAGGATTTCCTTGTTGCATTTGGGGGAACCAAAAAGGAGCCATCAAATGAG
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taagcaccatc---ttactatacattattatttctagatgccttatacatcctttcttcatgataaattaaaactatgtttataagatctgttgaattaccagGGTTTCAGCATGGTACTTGTGCAGCACAAGGAAAAAGATTTTCTTGTTGCATTTGGGGGATCCAAAAAAGAACCATCAAATCAG
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA13G28760.1 (Glycine max), 3'ss of exon 10
cagacacaactggttcagttggtagcatttttcttactgggcattggatatattctcattt-tgtattgttgcttggcatctaaagtctgttgt-ttcccagGGATTCAGCCTAGTGCTTGTGCAGCACAAAGAAAAGGATTTCCTTGTTGCATTTGGGGGAACCAAAAAGGAGCCATCAAATGAG
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--aattcttaaatctcctgcagtagccgattttgtttgtatgattgaccatctttttctaagtgtttaaaaagcttgtatataatatctgttatattagcagGGTTTTAGCCTAACACTCGTGCAACACAAGGATAAAGACTTCCTTGTTGCATTTGGGGGATCCAAAAAAGAGCCATCAAATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggatatattctcattttgtattgttgcttggcatctaaagtctgttgtttcccagGGATTCAGCCTAGTGCTTGTGCAGCACAAAGAAAAGGATTTCCTTGTTGCATTTGGGGGAACCAAAAAGGAGCCATCAAATGAG
atctaaa putative branch site (score: 3)
ttgtttccc putative PPT
attttgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagacacaactggttcagttggtagcatttttcttactgggcattggatatattctcattttgtattgttgcttggcatctaaagtctgttgtttcccagGGATTCAGCCTAGTGCTTGTGCAGCACAAAGAAAAGGATTTCCTTGTTGCATTTGGGGGAACCAAAAAGGAGCCATCAAATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
cagacac
- - - - -ctggttc
- - - - - - - - - - - - - - - - -ttactgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatcta