Sequence
atgc intronic sequence ATGC exonic sequence...tatgatcactactctgtaaacatccaatgcttgaatttgcttccatatacatccccattatttgccagttacttattagtttgaatgactaaaatttcagGTTGGATTAGAGGAAGGGACTCCTCTAGGCTATTACATTACGAAGGGGGTGGAGCTAGGACTCCATCAACAGATATTGTCTGCCCCATGTATATGCGTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03000.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G032496_T01 (Zea mays), 3'ss of exon 2
tatgatcactactctgtaaacatccaatgcttgaatttgcttccatatacatccccattatttgccagttacttattagtttgaatgactaaaatttcagGTTGGATTAGAGGAAGGGACTCCTCTAGGCTATTACATTACGAAGGGGGTGGAGCTAGGACTCCATCAACAGATATTGTCTGCCCCATGTATATGCGTGT
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-----------------------------gtaaaatattcttacctgtcagtttaatttctgtacttctcatctaatggt-------aacattcttctagGTTGGATTCGTGAAAGGGATCCAACAAGACTCCTCCATTATGAGGGAGGTGGTTCCAGAACATCATCCACAGATATTGTGTGCCCCATGTATATGCGTGT
upper sequence: Vv13s0067g03000.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G37670.1 (Glycine max), 3'ss of exon 4
----tatgatcactactctgtaaacatccaatgcttgaatttgcttccata-tacatccccattatttgccagttacttattagtttgaatgactaaaatttcagGTTGGATTAGAGGAAGGGACTCCTCTAGGCTATTACATTACGAAGGGGGTGGAGCTAGGACTCCATCAACAGATATTGTCTGCCCCATGTATATGCGTGT
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gtaggttgtgcacttttttactgac-tctgctg-ttacatttgtttgaaaaattgcttgctaatatatatttttcttttcttcattctg----tcaatgtatcagGTTGGATTCGAGGAAGAGATTCATCGCGGGTATTGCATTATGAAGGAGGTGGATCCAGGACTCCATGCACTGATATTGTGTGTCCTATGTATATGCGTGT
upper sequence: Vv13s0067g03000.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G26700.1 (Glycine max), 3'ss of exon 9
-----------------------------------tatgatcactactctgtaaacatccaatgcttgaatttgcttccatatacatccc---cattatttgccagttacttattagttt----gaatgactaaaatttcagGTTGGATTAGAGGAAGGGACTCCTCTAGGCTATTACATTACGAAGGGGGTGGAGCTAGGACTCCATCAACAGATATTGTCTGCCCCATGTATATGCGTGT
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gtaggcattgcactttggttcacttaccaattgatggcgtatgcatatttgaagtaacttttttattgactctgctgttacatttgtttgaaaaattgctttctaatatttttttcttttctccattttgtcaatgcatcagGTTGGATTCGGGGAAGAGATTCATCTCGGGTATTGCATTATGAAGGAGGTGGATCCAGGACTCCGTGCACTGATATTGTGTGTCCTATGTATATGCGTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatacatccccattatttgccagttacttattagtttgaatgactaaaatttcagGTTGGATTAGAGGAAGGGACTCCTCTAGGCTATTACATTACGAAGGGGGTGGAGCTAGGACTCCATCAACAGATATTGTCTGCCCCATGTATATGCGTGT
gactaaa putative branch site (score: 2)
ttacttattagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgatcactactctgtaaacatccaatgcttgaatttgcttccatatacatccccattatttgccagttacttattagtttgaatgactaaaatttcagGTTGGATTAGAGGAAGGGACTCCTCTAGGCTATTACATTACGAAGGGGGTGGAGCTAGGACTCCATCAACAGATATTGTCTGCCCCATGTATATGCGTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - -ctctgta
- - - - - - - - - -acatcca
- - - - - - - - - - - - - -tgcttga
- - - - - - - - - - - - - - - - - - - gcttcca