Sequence
atgc intronic sequence ATGC exonic sequence...taattgtatatatgttctctgtatacatgctcttcaacatatattactgcacttgtcttttaattttatgtccatgtaacaatgattatctcttatgtagGTCAAATTGTTGATACTGTTGTAATGAATCCTCCATTTGGAACACGGAAGAAGGGGGCTGACATGGATTTTCTCGCTGTGGCTTTGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G113640_T05 (Zea mays), 3'ss of exon 5
-taattgtatatatgttctctgtatacatgctcttcaacatatattactgcacttgtcttttaattttatgtccatgtaacaatgattatctctta-tgtagGTCAAATTGTTGATACTGTTGTAATGAATCCTCCATTTGGAACACGGAAGAAGGGGGCTGACATGGATTTTCTCGCTGTGGCTTTGAAG-----------
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gaaacagcgt-cacacagagcaaatgga-acacttctaaaagcattcttcttcccctaattgaactttaccttgtggctgaatagaaagcaatttagtgcagGCGTCCATGTTGATACTGTTGTCATGAATCCTCCCTTTGGTACACGAAGGAATGGAGCAGACATGGAGTTCCTCTCTATGGCCTTGCAGGTCAGAACCGG
upper sequence: Vv11s0016g03520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G113640_T03 (Zea mays), 3'ss of exon 4
-taattgtatatatgttctctgtatacatgctcttcaacatatattactgcacttgtcttttaattttatgtccatgtaacaatgattatctctta-tgtagGTCAAATTGTTGATACTGTTGTAATGAATCCTCCATTTGGAACACGGAAGAAGGGGGCTGACATGGATTTTCTCGCTGTGGCTTTGAAG
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gaaacagcgt-cacacagagcaaatgga-acacttctaaaagcattcttcttcccctaattgaactttaccttgtggctgaatagaaagcaatttagtgcagGCGTCCATGTTGATACTGTTGTCATGAATCCTCCCTTTGGTACACGAAGGAATGGAGCAGACATGGAGTTCCTCTCTATGGCCTTGCAG
upper sequence: Vv11s0016g03520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G34690.3 (Glycine max), 3'ss of exon 5
---taattgtatatatgttctctgtatacatgctcttcaacatatattactgcacttgtcttttaattttatgtccatgtaacaatgattatctcttatgtagGTCAAATTGTTGATACTGTTGTAATGAATCCTCCATTTGGAACACGGAAGAAGGGGGCTGACATGGATTTTCTCGCTGTGGCTTTGAAG
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agctggctgaaaatcaattctaagttctaactctagattttatatgttgttgaaatttttctataac---aaactcgtatgattatctgggtattgtctctagGTCGAATTGTTGATACAGTTATAATGAATCCTCCATTTGGTACTCGGAAAAAAGGTGCAGATTTGGATTTTCTCTCCGTTGCTTTGAAG
upper sequence: Vv11s0016g03520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G28830.1 (Arabidopsis thaliana), 3'ss of exon 5
taattgtatatatgttctctgtatacatgctcttcaacatatattactgcacttgtcttttaattttatgtccatgtaacaatgattatctcttatgtagGTCAAATTGTTGATACTGTTGTAATGAATCCTCCATTTGGAACACGGAAGAAGGGGGCTGACATGGATTTTCTCGCTGTGGCTTTGAAG
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-----gtacaatcctcctttcatttcagttcattcaacgaaaa-----gaagat-tctaccggtaacatttttgtggctccatga--attgttt---tagGCCTGATTGTGGATACGGTTGTAATGAACCCTCCATTTGGTACACGGAAGAAAGGAGCTGACATGGAGTTTCTCTCTGCGGCAATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgcacttgtcttttaattttatgtccatgtaacaatgattatctcttatgtagGTCAAATTGTTGATACTGTTGTAATGAATCCTCCATTTGGAACACGGAAGAAGGGGGCTGACATGGATTTTCTCGCTGTGGCTTTGAAG
atgtaac putative branch site (score: 3)
ttatctctt putative PPT
ttgtcttttaatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taattgtatatatgttctctgtatacatgctcttcaacatatattactgcacttgtcttttaattttatgtccatgtaacaatgattatctcttatgtagGTCAAATTGTTGATACTGTTGTAATGAATCCTCCATTTGGAACACGGAAGAAGGGGGCTGACATGGATTTTCTCGCTGTGGCTTTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - ctctgta
- - - - - - - - - - - - -catgctc
- - - - - - - - - - - - - - - - - - - - - - tactgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgta