Sequence
atgc intronic sequence ATGC exonic sequence...ctattggaatttatttttatattctcatgttatgttttgcttgtcataatacattccttgtccatattttcattttaattttatatcttttgaaacacagAGAAATTGGATTTGAAGAGTGCATATGAGTATAAGTATTTGAAGCAGAGCAATTGCTACTCAATTACTGGGGTTGATGATGCTGAGCAATTTCGCATTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 8
ctattggaatttatttttatattctcatgttat-gttttgcttgtcataatacattccttgtccatattttcattttaattttatatc---ttttgaaacacagAGAAATTGGATTTGAAGAGTGCATATGAGTATAAGTATTTGAAGCAGAGCAATTGCTACTCAATTACTGGGGTTGATGATGCTGAGCAATTTCGCATTGT
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---agaatattcctctacataatattaactcattaagttgtatattcttgtttattagcc-tttgccttttcattgttgtttgatgtttgattttgtattgcagAGAAGCTAAATCTACTAAGTGCTGAAGACTATAAATATCTGAGGCAGAGCAATTGTTATTCAATTACGGGAGTTGATGATGCAGAAGAATTTCGCATAGT
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 10
ctattggaatttatttttatattctcatgttatgttttgcttgtcataatacat-tccttgtccat---attttcattttaattttatatct--tttgaaacacagAGAAATTGGATTTGAAGAGTGCATATGAGTATAAGTATTTGAAGCAGAGCAATTGCTACTCAATTACTGGGGTTGATGATGCTGAGCAATTTCGCATTGT
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------agctttgtattctcgtgttcatcttgtctgtaacatttaatgttctgtgttcttgtctatttgactttctatttcattgtttgtttgatttgtaattcagGGAAGCTAAACCTACAAAATGCAGAAGACTATAATTATCTGAGGCAGAGCAATTGTTATTCAATTACTGGTGTTAATGATGCAGAAGAATTTCGTACAGT
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 10
------------------------------------------------------------------------ctattggaatttatttttatattctcatgt-tatgttt--tgcttgtcataatacattccttgtccatattttcattttaattttatatcttttgaaacacagAGAAATTGGATTTGAAGAGTGCATATGAGTATAAGTATTTGAAGCAGAGCAATTGCTACTCAATTACTGGGGTTGATGATGCTGAGCAATTTCGCATTGT
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gtattatttggatatctgatcaacagttctcttttaaagatcttatgttggatctattgcaagtgaaaatgattagtgtgatagaaatttacatattcatatatatggttactgactaac-tggtggaacaatattgtttatctgacgttttgtttcgctcattgttaaat-cagAGAAGTTAAATTTGACAAGTGCAAAACAGTATAACTATTTGAAACAAAGCAATTGCTATTCAATTAACGGAGTTGATGACGCTGAACGTTTTCACGCCGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataatacattccttgtccatattttcattttaattttatatcttttgaaacacagAGAAATTGGATTTGAAGAGTGCATATGAGTATAAGTATTTGAAGCAGAGCAATTGCTACTCAATTACTGGGGTTGATGATGCTGAGCAATTTCGCATTGT
ttttaat putative branch site (score: 3)
tatctttt putative PPT
atattttcattttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctattggaatttatttttatattctcatgttatgttttgcttgtcataatacattccttgtccatattttcattttaattttatatcttttgaaacacagAGAAATTGGATTTGAAGAGTGCATATGAGTATAAGTATTTGAAGCAGAGCAATTGCTACTCAATTACTGGGGTTGATGATGCTGAGCAATTTCGCATTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
ctattgg
- - - - - - - - - - - -ctcatgt
- - - - - - - - - - - - - - - - - - - gcttgtc