Sequence
atgc intronic sequence ATGC exonic sequencegtactgattcatacttacttttattgtcctttaaatttttattttccttctgtggtgccattcatttatgttaattttgttgttagGTTTCCTGATTTACGTGATGCACTGGAAAAACTTCAACTGAATGATGCTGCATTAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os02g06300.1 (Oryza sativa), 3'ss of exon 11
gtactgattcatacttacttttattgtcctttaaatttttattttccttctgtggtgccattcatttatgttaattttgttgttagGTTTCCTGATTTACGTGATGCACTGGAAAAACTTCAACTGAATGATGCTGCATTAAAG
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-----gtactatactttcccttgaaattttttccattatt-ttttctgcacatgg-atcacatattaaatatggttgt-ctgttagGTTTGAGGAGTTACGTGAAGCATTGGAAAAGCTTCAACTAAATGATGCTGCTTTAAAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA06G16700.1 (Glycine max), 3'ss of exon 11
-----------gtactgattcatacttacttttattgtcctttaaatttttatt-ttccttctg--------tggtgccattcattta--tgttaat-tttgttgttagGTTTCCTGATTTACGTGATGCACTGGAAAAACTTCAACTGAATGATGCTGCATTAAAG
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gtatttatctcttgttgaccctcttctttctttcttgagcaaaagagttgtattgttactcttgaatgtatctgaaactaatcatatccttactatcatttgttgtcagATTCCCTGATCTGCGTGATGCACTTGAAAAGCTACAACTCAATGATGCTGCACTTAAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT5G08650.1 (Arabidopsis thaliana), 3'ss of exon 11
gtactga-ttcatacttacttttattgtcctttaaatttttattttccttctgtggtgccattcatttatgttaattttgttgttagGTTTCCTGATTTACGTGATGCACTGGAAAAACTTCAACTGAATGATGCTGCATTAAAG
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gtactgagtttttgtttttcattgttgactttttgctttttcattttgtatttt--tttttttcacacctggt--ctatgatggcagGTTTCCCGATCTTCGCGATGCATTGGAAAAACTGCAACTCAATGATGCTGCATTGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatttttattttccttctgtggtgccattcatttatgttaattttgttgttagGTTTCCTGATTTACGTGATGCACTGGAAAAACTTCAACTGAATGATGCTGCATTAAAG
tgttaat putative branch site (score: 3)
ttttgtt CT-rich tract
attcatttatgttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgattcatacttacttttattgtcctttaaatttttattttccttctgtggtgccattcatttatgttaattttgttgttagGTTTCCTGATTTACGTGATGCACTGGAAAAACTTCAACTGAATGATGCTGCATTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC