Sequence
atgc intronic sequence ATGC exonic sequencegtatgaagtatgattggcttattagagttttgattaacactgattaacttaagtgcgactatgtactgatggcagGTGGATGCCTATGAGGCAAAAAATCAAGAGCTGATGGCAGAAAATACTGATTTGAGGGCATTATTACGGTCAATGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os08g14460.1 (Oryza sativa), 3'ss of exon 8
---------------gtatgaagtatgattggcttattagagttttgattaacactgattaacttaagtgcgactatgtactgatgg-cagGTGGATGCCTATGAGGCAAAAAATCAAGAGCTGATGGCAGAAAATACTGATTTGAGGGCATTATTACGGTCAATGCAG
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gtaagtgactacgcgttatgttatacatctctctgatgcataccgtgtacctgattgaatatattgtaatttaccttgagtgaacattcagGTTGATGCCTATGAGGTAAAGAAGCAAGAGTTGATGCAAGAAAATGCTGATTTGCGAGCACTATTGCGTTCGATGCAG
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G07040.2 (Glycine max), 3'ss of exon 9
----------gtatgaagtatgattggcttattagagtttt----gattaacactgattaac-ttaagtgcgacta---tgtactgatggcagGTGGATGCCTATGAGGCAAAAAATCAAGAGCTGATGGCAGAAAATACTGATTTGAGGGCATTATTACGGTCAATGCAG
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gtatgcatattgataaactttcactctgtcattacagttctttgtattcgggacacatcctcgtctcatacaatttatttttaatgttgaaagGTGGATGCTTATGAGTCAAAAAATCAAGAACTGATGGCAGAGAATGCTGATTTAAGAGCATTATTGAGATCAATGCAG
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G00980.1 (Glycine max), 3'ss of exon 9
----------gtatgaagtatgattggcttattagagttttgatta------acactgattaacttaagtgcgacta---tgtactgatggcagGTGGATGCCTATGAGGCAAAAAATCAAGAGCTGATGGCAGAAAATACTGATTTGAGGGCATTATTACGGTCAATGCAG
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gtatgcatattgaaaaactttcactctgtcattatagttctttgtattcgggacacaccctcatctca-tacaatttatttttaatgttgaaagGTGGATGCTTATGAGTCAAAGAATCAAGAACTGATGGCAGAGAATGCTGATTTAAGAGCATTATTGAGATCAATGCAG
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G18876.2 (Arabidopsis thaliana), 3'ss of exon 7
-------gtatga-agtatgattggctta----ttagagtt---ttgattaacac-tgattaacttaagtgcgactatgtactgatggcagGTGGATGCCTATGAGGCAAAAAATCAAGAGCTGATGGCAGAAAATACTGATTTGAGGGCATTATTACGGTCAATGCAG
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gtaaccaccatgacaatttagctttctcaggccttatatttcattgaatcaatgtgttactgacacatatggcgcaatatgatattttcagGTGGATGCATATGAGGCGAAAAATCAAGAACTGATGGCAGAGAACACTGATCTGAGAGCGTTACTACGATCAACGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attagagttttgattaacactgattaacttaagtgcgactatgtactgatggcagGTGGATGCCTATGAGGCAAAAAATCAAGAGCTGATGGCAGAAAATACTGATTTGAGGGCATTATTACGGTCAATGCAG
tactgat putative branch site (score: 2)
ttttgattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaagtatgattggcttattagagttttgattaacactgattaacttaagtgcgactatgtactgatggcagGTGGATGCCTATGAGGCAAAAAATCAAGAGCTGATGGCAGAAAATACTGATTTGAGGGCATTATTACGGTCAATGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT