Sequence
atgc intronic sequence ATGC exonic sequence...tatttatttatttattattattagatatacgacatactgccagtttgtatcagctgtttatatatatatttttttatatataaaaaaatgttctttccagGTACGTTTAAGCTGACACTTCAGTTCACAGAGGAGTATCCAAATAAGCCCCCAACTGTTAGATTTGTTTCTCGAATGTTCCATCCAAATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0108g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os05g08960.1 (Oryza sativa), 3'ss of exon 3
-tatttatttatttattattattagatatacg-acatactgccagtttgtatcagctgtttatatatatatttttttatat-ataaaaaaat-gttctttccagGTACGTTTAAGCTGACACTTCAGTTCACAGAGGAGTATCCAAATAAGCCCCCAACTGTTAGATTTGTTTCTCGAATGTTCCATCCAAATA
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tcctttttgtatttattggcattttgttcttgtacgtgtcaccaatt-gtact---cttttacatgttaacactgtcaaattatgtttacttcgccatcgccagGTACGTTCAAGCTGACACTTCAGTTTACTGAAGATTATCCTAACAAGCCACCTACAGTGCGATTTGTTTCTCGGATGTTTCATCCTAACA
upper sequence: Vv14s0108g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G110983_T04 (Zea mays), 3'ss of exon 3
--tatttatttatttattattattagatatacgacatactgccagtttgtatcagctgtttatatatatatttt--tttatatataaaaaaatgttct--ttccagGTACGTTTAAGCTGACACTTCAGTTCACAGAGGAGTATCCAAATAAGCCCCCAACTGTTAGATTTGTTTCTCGAATGTTCCATCCAAATA
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acagctcttagattctgtgtcactagct---tgtctttctg--agcttactaca-tggtttgcttctgtcctttgactgatatgctaactcctgttttattctcagGTACGTTTAAGCTGACTCTCCAGTTTAATGAAGAATATCCAAACAAACCACCAACTGTGCGATTTGTTTCTAGGATGTTCCATCCTAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtatcagctgtttatatatatatttttttatatataaaaaaatgttctttccagGTACGTTTAAGCTGACACTTCAGTTCACAGAGGAGTATCCAAATAAGCCCCCAACTGTTAGATTTGTTTCTCGAATGTTCCATCCAAATA
tgttctttcc CT-rich tract
tttatatatatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatttatttatttattattattagatatacgacatactgccagtttgtatcagctgtttatatatatatttttttatatataaaaaaatgttctttccagGTACGTTTAAGCTGACACTTCAGTTCACAGAGGAGTATCCAAATAAGCCCCCAACTGTTAGATTTGTTTCTCGAATGTTCCATCCAAATA
- - - - - - - - - - - - - - - - - -actgcca
- - - - - - - - - - - - - - - - - - - - - - - - - cagctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa