Sequence
atgc intronic sequence ATGC exonic sequence...tattttgcacttgtaatgttcaatcatggtttgagaatgagcattcttctaacttttccagtgccattacacaagatgttcttcaatttctgttttgtagGGAGATGAAAATGTTGGGGTTGCCCTTCTGACTTATCCTGTTCTCATGGCTTCTGATATTCTTTTATATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g00200.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g54020.2 (Oryza sativa), 3'ss of exon 6
tattttgcacttgtaatgttcaatcatggtttgagaatgagca-ttcttctaacttttccagtgccattacacaagatgttcttcaatttctgttttgtagGGAGATGAAAATGTTGGGGTTGCCCTTCTGACTTATCCTGTTCTCATGGCTTCTGATATTCTTTTATATCAG
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-gcaaaaccctcaactccttatatcatggtgttgtactgtttaatccgtcctattttggcaaatttttattttgttgggtttatttttttcttatttatagGGTGATGAAAATGTTGGAGTGGCACTTTTGACTTATCCTGTTTTAATGGCTTCTGACATTCTCCTGTACCAG
upper sequence: Vv04s0008g00200.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G177970_T02 (Zea mays), 3'ss of exon 6
-tattttgcacttgtaatgttcaatcatggtttgagaatgagcattcttctaacttttccagtgccattacacaagatgttcttcaatttctgttttgtagGGAGATGAAAATGTTGGGGTTGCCCTTCTGACTTATCCTGTTCTCATGGCTTCTGATATTCTTTTATATCAG
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agagtccattgttgcagaatccttcaatgccttatggtgttacatatttcagattgctgaaggttgactataatag-tactgttgatgatttttttaatagGGTGATGAAAATGTTGGGGTTGCACTTTTGACTTATCCTGTTCTAATGGCTTCTGACATTCTTTTGTACCAG
upper sequence: Vv04s0008g00200.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G09240.2 (Glycine max), 3'ss of exon 2
tattttgcacttgtaatgttcaatcatggtttgagaatgagcat---tcttctaacttttccagtgccattacacaagatgttcttcaatttctgttttgtagGGAGATGAAAATGTTGGGGTTGCCCTTCTGACTTATCCTGTTCTCATGGCTTCTGATATTCTTTTATATCAG
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taaatcaggcccatggttctcttcagtgctcctcatgctggcttgtatgttttcatttatcttatccaaata-atagattcttttggaattg--gatttgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG
upper sequence: Vv04s0008g00200.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G09130.2 (Glycine max), 3'ss of exon 6
-----tattttgcacttgtaatgttcaatcatggtttgagaatgagcattcttctaacttttccagtgccattacacaagatgttcttcaatttctgttttgtagGGAGATGAAAATGTTGGGGTTGCCCTTCTGACTTATCCTGTTCTCATGGCTTCTGATATTCTTTTATATCAG
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tttgctaaatcaggcccatgtttttcttcagtgctcctcatgctggc----ttgtatgttttcatttatccaaataatagattcttttggaattg-gatctgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttctaacttttccagtgccattacacaagatgttcttcaatttctgttttgtagGGAGATGAAAATGTTGGGGTTGCCCTTCTGACTTATCCTGTTCTCATGGCTTCTGATATTCTTTTATATCAG
ttctaac putative branch site (score: 1)
tttctgtttt putative PPT
ttcaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattttgcacttgtaatgttcaatcatggtttgagaatgagcattcttctaacttttccagtgccattacacaagatgttcttcaatttctgttttgtagGGAGATGAAAATGTTGGGGTTGCCCTTCTGACTTATCCTGTTCTCATGGCTTCTGATATTCTTTTATATCAG
- - - gcacttg
- - - - - - - - - - - - catggtt
- - - - - - - - - - - - - - - - gagaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgccatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acacaag