Sequence
atgc intronic sequence ATGC exonic sequence...ctaggcgattttcatagtatcattgggttcatattcagtttcatgtgcttttgatctttctaatttgtatattgcttgctgcattatctttgtcttgcagTTCTTTGTGTTGAGGGATTATGCCAGAGAAATTCTTGCTTTAAGATGGAGATCTTGGATGACAAGCTATTACATGGAACGCTATCTAAAGAATTGGACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0085g01190.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g11946.2 (Oryza sativa), 3'ss of exon 3
----ctaggcgattttcatagtatcattgggtt-catattcagtttcatgtgcttttgatctttctaatttgtatattgcttgctgcattatctttgtcttgcagTTCTTTGTGTTGAGGGATTATGCCAGAGAAATTCTTGCTTTAAGATGGAGATCTTGGATGACAAGCTATTACATGGAACGCTATCTAAAGAATTGGACAT
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tctatcaatcaaggat-atgtactttctgtgttgcagaatcagcaacctgtattcct-atgagtataatt-gtgttctgatttctgc--tctcactatactgcagTTCTTTGTCTTGAGAGACTATGCAAGGGAGACCCTTTCTTTAAGATGGCGATCTTGGATGACAAGTTATTACATGAAGCGCTACTTTAAAAATAGAACTT
upper sequence: Vv19s0085g01190.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G074103_T02 (Zea mays), 3'ss of exon 3
ctaggcgattttcatagtatcattgggt-tcatattcagtttcatgtgcttttgatctttctaatttgtatattgct-tgctgcattatcttt----gtcttgcagTTCTTTGTGTTGAGGGATTATGCCAGAGAAATTCTTGCTTTAAGATGGAGATCTTGGATGACAAGCTATTACATGGAACGCTATCTAAAGAATTGGACAT
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------catttgtttaatattctagtgtcttctatttctgttcgtaaaaacctaatgttcttgtttttcaactcattgtatcaaaatttctttcgctgttatgcagTTCTTTGTCTTGAGAGACTATGCAAGAGAAACTCTTTCTTTGCGATGGCGATCTTGGATGACAAGTTATTATATGAAGCGTTACTTTAAAAACAGAACTT
upper sequence: Vv19s0085g01190.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G17110.1 (Glycine max), 3'ss of exon 5
------ctaggcgattttcatagtatcattgggttcatattcagtttcatgtgcttttgatctttctaatttgtatattgcttgctgcattatctttgtcttgcagTTCTTTGTGTTGAGGGATTATGCCAGAGAAATTCTTGCTTTAAGATGGAGATCTTGGATGACAAGCTATTACATGGAACGCTATCTAAAGAATTGGACAT
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tttatgcttgctgttctgcattgtttttggtgtgtcatgctcatatccttat---tccaaccttctgcacatgtttcttacc--ctgt-tcatcattgcattgcagATTTTTGTGTTGAGAGATTATGCAAGAGAAACTCTTTCTTTGAGATGGAGATCTTGGATGACAAGATATTACATTGATCGCTATCTGAAGAATCAAACTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcttttgatctttctaatttgtatattgcttgctgcattatctttgtcttgcagTTCTTTGTGTTGAGGGATTATGCCAGAGAAATTCTTGCTTTAAGATGGAGATCTTGGATGACAAGCTATTACATGGAACGCTATCTAAAGAATTGGACAT
ttctaat putative branch site (score: 2)
tctttgtctt putative PPT
tttctaatttgtatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaggcgattttcatagtatcattgggttcatattcagtttcatgtgcttttgatctttctaatttgtatattgcttgctgcattatctttgtcttgcagTTCTTTGTGTTGAGGGATTATGCCAGAGAAATTCTTGCTTTAAGATGGAGATCTTGGATGACAAGCTATTACATGGAACGCTATCTAAAGAATTGGACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - tcatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcttgct