Sequence
atgc intronic sequence ATGC exonic sequence...ctcatggcacactttctaagttttccatctattttcttatgtacacacttgtaagctttccatccttgtgctagtcattaattttcagatccatatgcagGCAAACAGAGATGTGACAAGAATGGAAATATTTATCTCACTCGTTCACCTTCTGGAGCAAACCGTGAAAGGCAGTACATTGTCGGCACATGGCATTGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G38930.1 (Glycine max), 3'ss of exon 9
ctcatggcacactttctaagttttccatctattttcttatgtacacacttgtaagctttccatccttgtgctagtcat--taattttcagatccatatgcagGCAAACAGAGATGTGACAAGAATGGAAATATTTATCTCACTCGTTCACCTTCTGGAGCAAACCGTGAAAGGCAGTACATTGTCGGCACATGGCATTGATA
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-tcttttc-tgttttttgatttttatgttatctgcattttaaaagcaaaagtttgatgcatgatgttaaggaatccaatgtagttattaatttaatatgcagGCAAACAGGGATATAACAAGGATGGAAATATTTATGTCACTTGTTTGTCTTTTGGAGCAAACGGTGAAGGGCAACACATCTTCATCCAATGCAATTGATA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G31460.1 (Glycine max), 3'ss of exon 9
ctcatggcacactttctaagttttccatctattttcttatgtacacacttgtaagctttccatccttgtgctagtcatta-attttcagatccatatgcagGCAAACAGAGATGTGACAAGAATGGAAATATTTATCTCACTCGTTCACCTTCTGGAGCAAACCGTGAAAGGCAGTACATTGTCGGCACATGGCATTGATA
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-ttgttttctgtttgttgatttagatgttatctgcattttaaaagcaaaaatttgatgcatgatgttaaggaatccaatgtagtattactttcatttgcagGCAAACAGGGATTTAACAAGGATGGAAATATTTATGTCACTAGTTCGTCTTTTGGAGAAAACGGTGAAGGGCAACACATCTCCATCCAACGCAATTGATA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G09990.1 (Glycine max), 3'ss of exon 4
--ctcatggcacactttctaagttttccatctat---tttcttatgtacacacttgtaagctttccatccttgtgctagtcattaattttcagatccatatgcagGCAAACAGAGATGTGACAAGAATGGAAATATTTATCTCACTCGTTCACCTTCTGGAGCAAACCGTGAAAGGCAGTACATTGTCGGCACATGGCATTGATA
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ccattaggagagagtttgtaggaaaaacagtgatagaaatgtgttgtaagaactcctagtttgtatat---tatggtagtcact--tttaaattttgctttgcagGCAAACAGGGATGTAACCAGGATGGAAATATTTATGTCACTGGTTCGTCTTTTGGATCAAACGATGAAGGGTGGTGCATCTTCGTCGAATGCAATTGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacttgtaagctttccatccttgtgctagtcattaattttcagatccatatgcagGCAAACAGAGATGTGACAAGAATGGAAATATTTATCTCACTCGTTCACCTTCTGGAGCAAACCGTGAAAGGCAGTACATTGTCGGCACATGGCATTGATA
cattaat putative branch site (score: 3)
tagtcattaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcatggcacactttctaagttttccatctattttcttatgtacacacttgtaagctttccatccttgtgctagtcattaattttcagatccatatgcagGCAAACAGAGATGTGACAAGAATGGAAATATTTATCTCACTCGTTCACCTTCTGGAGCAAACCGTGAAAGGCAGTACATTGTCGGCACATGGCATTGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
-tcatggc
- - - - - - - - - - - - ccatcta
- - - - - - - - - - - - - - - - - - - - -tacacac