Sequence
atgc intronic sequence ATGC exonic sequencegtaagtatttcagatgaatattactccttgaagaagcatatttgtccatcttcagatatgcttaatttttgtgatacaattcatgcagGATTTATCAACTGGTTGGCTTCATTGTGATCCTGGTCCGTTGTTTAAGCCAGAGTATTTCGATTTATCAGGATGGGTTCCTAGATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0187g00380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os10g17990.1 (Oryza sativa), 3'ss of exon 7
------------------gtaagtatttcagatgaatattactccttgaagaagcatatttgtccatcttcagatatgcttaatttttgt-gatacaatt-catgcagGATTTATCAACTGGTTGGCTTCATTGTGATCCTGGTCCGTTGTTTAAGCCAGAGTATTTCGATTTATCAGGATGGGTTCCTAGATGG
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ttacttggttttaagcctctcagtaatgtagatgcaattttatatttttcgaagcaaggttgga-atctac-------ttcaatctttgttaatcctgttatctacagGATTTGTCGACTGGATGGCTTCATTGTGATCCTGGCTCTATATTTACACCAGAAAGTTATGATTTACCAGGATGG------------
upper sequence: Vv00s0187g00380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM5G825110_T01 (Zea mays), 3'ss of exon 7
-----gtaagtatttcagatgaatattactccttgaagaagcatatttgtccatcttcagatatgcttaatttttgtgatacaattcatg-cagGATTTATCAACTGGTTGGCTTCATTGTGATCCTGGTCCGTTGTTTAAGCCAGAGTATTTCGATTTATCAGGATGGGTTCCTAGATGG
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gttacgtagattttcttcagaaatcagaata-tggttgttgtatggctaagt-tgttgttgtgttgctaattttttt-atgcaaataatttcagGATCTGTCAACTGGGTGGCTTTATTGTGATCCTGGTCCAATGTTTAAGCCAGAGCATTACTCATTGGGAGAGTCGGTGCCACATTGG
upper sequence: Vv00s0187g00380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G452529_T02 (Zea mays), 3'ss of exon 7
gtaagtatttcagatgaatattactccttgaagaagcat-atttgtccatctt-cagatatgct--taatttttgtgataca-attcatgcagGATTTATCAACTGGTTGGCTTCATTGTGATCCTGGTCCGTTGTTTAAGCCAGAGTATTTCGATTTATCAGGATGGGTTCCTAGATGG
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--------gttacatagattttcttcagaatatgattgttgtatggctaagttgctgttgcgttgctaattttttt-atgcacataatttcagGATCTGTTGACTGGGTGGCTTTATTGTGATCCTGGTCCAATGTTTAAGCCAGAGCATTACTCATTGGGAGAGTGGGTGCCGCATTGG
upper sequence: Vv00s0187g00380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G32660.2 (Glycine max), 3'ss of exon 7
----gtaagtatttcagatgaata-ttactccttgaagaagcat-atttgtccatcttcagat--atgcttaatttttgtgatacaattcatgcagGATTTATCAACTGGTTGGCTTCATTGTGATCCTGGTCCGTTGTTTAAGCCAGAGTATTTCGATTTATCAGGATGGGTTCCTAGATGG
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gtagctctgtaatatacataactaattgatatattgtaaggcattattcaacaaaaaactgactaatgctcacatctctttgggaacaacattcagGATTTGTCAACTGGTTGGCTTCACTGTGATCCTGGTCCACTGTTTAAGCCAGAATCTTATCCCTTACCTGGATGTATTTCTCACTGG
upper sequence: Vv00s0187g00380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G34940.1 (Glycine max), 3'ss of exon 7
gtaagtatttcagatgaatattactccttgaagaagcatatttgtccatcttcagatatgcttaatttttgtgatacaattcatgcagGATTTATCAACTGGTTGGCTTCATTGTGATCCTGGTCCGTTGTTTAAGCCAGAGTATTTCGATTTATCAGGATGGGTTCCTAGATGG
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----gtataactaattgatataatg---taaggcattattcaacaacaaactgactaatgctcacatctctttgggaataacattcagGATTTGTCAACTGGTTGGCTTCACTGTGATCCTGGTCCACTGTTTAAGCCGGAATCTTATCCCTTACAAGGATGGATTTCCCACTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagcatatttgtccatcttcagatatgcttaatttttgtgatacaattcatgcagGATTTATCAACTGGTTGGCTTCATTGTGATCCTGGTCCGTTGTTTAAGCCAGAGTATTTCGATTTATCAGGATGGGTTCCTAGATGG
gcttaat putative branch site (score: 4)
atatgcttaattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtatttcagatgaatattactccttgaagaagcatatttgtccatcttcagatatgcttaatttttgtgatacaattcatgcagGATTTATCAACTGGTTGGCTTCATTGTGATCCTGGTCCGTTGTTTAAGCCAGAGTATTTCGATTTATCAGGATGGGTTCCTAGATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG