Sequence
atgc intronic sequence ATGC exonic sequence...ttttttttttccttctctttttatcatgtttcaccaggttcctatcaacataatagtcattgtagtctctgatatgtgattatttggatgcttagaacagGTCAATAGAGGTCTCTTATCTTCAGGGATCATGGCTTCTTATATTGTTTTCCTCTGTTGGTCTGCTATCAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0051g00380.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G018756_T02 (Zea mays), 3'ss of exon 6
--ttttttttttccttctctttttatcatgtttcaccaggttcctatcaacataatagtcattgtagtctctgatatgtgattatttggatgcttagaacagGTCAATAGAGGTCTCTTATCTTCAGGGATCATGGCTTCTTATATTGTTTTCCTCTGTTGGTCTGCTATCAGAAG
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acggtaactaacaagtaaaattctgtaaaacttt--tgggtctttgccctgcctgaaatgtacaaggtttgtgattttagttcatttttgtttgctgagaagGTTAACGAGGGTCTTCTCTCTTCTGGGATCATGAGTTCATATATTGTTTTCCTTTGTTGGTCTGCACTCCACAG
upper sequence: Vv05s0051g00380.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G19930.1 (Glycine max), 3'ss of exon 6
ttttttttttccttctctttttatcatgtt-tcaccaggttcctatcaacataatagtcattgtagtctctgatatgtgatt-atttggatgcttagaacagGTCAATAGAGGTCTCTTATCTTCAGGGATCATGGCTTCTTATATTGTTTTCCTCTGTTGGTCTGCTATCAGAAG
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--gttcacattcaacatatattattaagttatcctaatattttaatttccaataaaacaattaaaatctatgttttgttatttaaatgtttaattattacagGTTAATAGAGGTCTTTTATCTTCAGGAATTATGGCTTCTTACGTTGTTTTCCTTTGTTGGAATGCAATCAGAAG
upper sequence: Vv05s0051g00380.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G33205.1 (Arabidopsis thaliana), 3'ss of exon 6
ttttttttttccttctctttttatcatgtttcaccaggttcctatcaacataatagtcattgtagtctctgatatgtgattatttggatgcttagaacagGTCAATAGAGGTCTCTTATCTTCAGGGATCATGGCTTCTTATATTGTTTTCCTCTGTTGGTCTGCTATCAGAAG
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--------------gtacatttcctaagttttgc----ttaaaggtagcacaaagattgatctctgcttcgaatactgatgctttgcat--taaaagGTGAAGAATAGAGGTCTTTTGTCTTCCGGGATTATGGCTTCTTACATTGTCTTCCTATGTTGGTCTGCGATCAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caacataatagtcattgtagtctctgatatgtgattatttggatgcttagaacagGTCAATAGAGGTCTCTTATCTTCAGGGATCATGGCTTCTTATATTGTTTTCCTCTGTTGGTCTGCTATCAGAAG
ctctgat putative branch site (score: 4)
atatgtgattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttttttttccttctctttttatcatgtttcaccaggttcctatcaacataatagtcattgtagtctctgatatgtgattatttggatgcttagaacagGTCAATAGAGGTCTCTTATCTTCAGGGATCATGGCTTCTTATATTGTTTTCCTCTGTTGGTCTGCTATCAGAAG
- - - - - ccttctc
- - - - - - - - - - - - - - -ttcacca
- - - - - - - - - - - - - - - - - - - - - - - aacataa