Sequence
atgc intronic sequence ATGC exonic sequence...ttgcaccctttttgctagatgtttatatattcttttggttgcccattcaaaagaaaaaaaaaaaaaagaagaaaaatcatccagaaattgttttttgcagGTTAACATAATTGACACTCCTGGTCATGTCGACTTCACCATTGAAGTTGAGAGGGCTTTGCGTGTCCTTGATGGTGCCATTCTTGTCCTTTGTAGTGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g36780.1 (Oryza sativa), 3'ss of exon 1
--ttgcaccctttttgctagatgtttatatattcttttggttgcccattcaaaagaaaaaaaaaaaaaagaagaaaaatcatccagaaattgttttttgcagGTTAACATAATTGACACTCCTGGTCATGTCGACTTCACCATTGAAGTTGAGAGGGCTTTGCGTGTCCTTGATGGTGCCATTCTTGTCCTTTGTAGTGTTG
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aaaggtacatgtataat--gctctttggatcagtcttggattgctttttaggttttggtataagtatttgaaagtgaaacctcaagatacaattttatgcagGTTAATATCATCGATACTCCAGGTCATGTGGATTTCACTATTGAGGTTGAAAGAGCACTCCGTGTTCTTGATGGTGCTATACTTGTGCTATGTAGTGTTG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G056393_T01 (Zea mays), 3'ss of exon 1
ttgcaccctttttgctagat-gtttatatatt-cttttggttg----cccatt-caaaagaaaaaaaaaaaaaagaagaaaaatcatccagaaattgttttttgcagGTTAACATAATTGACACTCCTGGTCATGTCGACTTCACCATTGAAGTTGAGAGGGCTTTGCGTGTCCTTGATGGTGCCATTCTTGTCCTTTGTAGTGTTG
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-----tttactgtgttggatagttcaaatgtttcttttgtttgaaatcacattacattgttcctattatgaggaattgaaagctcatcttacaatt--taaatgcagATTAATATTATTGATACTCCAGGTCACGTGGATTTCACCATTGAGGTTGAAAGGGCACTCCGTGTTCTTGATGGAGCTATACTTGTACTATGTAGTGTTG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 1
-ttgcaccctttttgctagatgtttatatattcttttggttgcccattcaaaagaaaaaaaaaaaaaagaagaaaaatcatccagaaattgtttt-ttgcagGTTAACATAATTGACACTCCTGGTCATGTCGACTTCACCATTGAAGTTGAGAGGGCTTTGCGTGTCCTTGATGGTGCCATTCTTGTCCTTTGTAGTGTTG
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tttttattatctgagtgaattgtggtta-attatcgtg-ttgtaagtaattttgtcttcatatatttatatgtttaatatcctgggaaatgtgttgttgcagATTAACATTATTGACACGCCTGGTCACGTTGATTTTACCATCGAGGTTGAGAGGGCTTTGCGTGTCCTTGATGGTGCCATTCTTGTTCTTTGTAGTGTTG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 1
ttgcaccctttttgctagatgtttatatattcttttggttgcccattcaaaagaaaaaaaaaaaaaagaagaaaaatcatccagaaattgttttttgcagGTTAACATAATTGACACTCCTGGTCATGTCGACTTCACCATTGAAGTTGAGAGGGCTTTGCGTGTCCTTGATGGTGCCATTCTTGTCCTTTGTAGTGTTG
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---------------------------------gtgagcagatagatagatagagatctttcttaattaatcctattgaattgagctttgaaatgaacagGTTAATATAATTGATACTCCTGGTCATGTTGACTTCACCATTGAAGTGGAGAGGGCTTTACGTGTACTAGACGGTGCGATTCTAGTCCTGTGCAGTGTTG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 1
------------------------------------------ttgcaccctttttgctagatgtttatatattcttttggttgcccattcaaaagaaaa----aaaaaaaaaagaagaaaaatcatccagaaattgttttttgcagGTTAACATAATTGACACTCCTGGTCATGTCGACTTCACCATTGAAGTTGAGAGGGCTTTGCGTGTCCTTGATGGTGCCATTCTTGTCCTTTGTAGTGTTG
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gtgaggagatagaaaaaaagatcttccttgtggattctgtgattctaatttcttctcagattcgtcaaaattggccttggttgtttaattgtgtagtaatcctattgcattgagctttgaaatt-tgttgttatgattgttgtcagGTTAATATAATTGATACTCCTGGTCACGTTGACTTCACCATTGAAGTGGAGAGGGCTTTACGTGTACTAGACGGTGCGATTCTAGTCCTATGCAGTGTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaaaagaaaaaaaaaaaaaagaagaaaaatcatccagaaattgttttttgcagGTTAACATAATTGACACTCCTGGTCATGTCGACTTCACCATTGAAGTTGAGAGGGCTTTGCGTGTCCTTGATGGTGCCATTCTTGTCCTTTGTAGTGTTG
ttgtttttt CT-rich tract
aagaaaaaaaaaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgcaccctttttgctagatgtttatatattcttttggttgcccattcaaaagaaaaaaaaaaaaaagaagaaaaatcatccagaaattgttttttgcagGTTAACATAATTGACACTCCTGGTCATGTCGACTTCACCATTGAAGTTGAGAGGGCTTTGCGTGTCCTTGATGGTGCCATTCTTGTCCTTTGTAGTGTTG
- -caccctt
- - - - - -ttgctag
- - - - - - - - - - - - - - - -cttttgg
- - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatcca