Sequence
atgc intronic sequence ATGC exonic sequencegtaaggagcctcactcagatgccaaagttaatttcagtgtacagagctcagagttttgctcactgccatgccagGTTGTTTTCTGCATTCACAACATAGCCTACCAAGGCAGATTTGCCTTTGCAGACTTCTCGCTTCTCAATCTCCCAGATGAATTCAAAAGCTCTTTCGACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g02600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os07g22930.4 (Oryza sativa), 3'ss of exon 5
--------------------------------------------------------gtaaggagcctcactcagatgc---caaagttaatttcagtgtacagagctcagagttttgctcactgccatgccagGTTGTTTTCTGCATTCACAACATAGCCTACCAAGGCAGATTTGCCTTTGCAGACTTCTCGCTTCTCAATCTCCCAGATGAATTCAAAAGCTCTTTCGACT
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gtacatcatttcgctatctcttgcaccttatgcacttttagactaataatctccacgtgatccaaattggtggtatgtaggcaaaaatattttc--tgtaccatgttttaattggtttattgtggtctgctagGTTGCTTTCTGCATTCACAATATTGCCTACCAGGGTAGATTTGCCAGAGAAGACTTTGAACTTCTTAATCTACCGGACAGTTTCCTGCCTTCATTTGATT
upper sequence: Vv15s0048g02600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G02110.1 (Glycine max), 3'ss of exon 7
--------------------------------------------gtaaggagc-ctcactcagatgccaaagttaatttcagtgtacag------agctc--agagttttgctcactgcca-tgccagGTTGTTTTCTGCATTCACAACATAGCCTACCAAGGCAGATTTGCCTTTGCAGACTTCTCGCTTCTCAATCTCCCAGATGAATTCAAAAGCTCTTTCGACT
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gtaggtctaaatctcactggcttgttattctgtagtgctattatttatatagtatttagttatttacctaatttaacattcatgatcaactcataagctcttcaaattttctttctggttgctaccagGTTGTTTTTTGTATCCACAACATTGCTTACCAAGGAAGATTTGCATTCGCCGACTTCTCACTTCTAAATCTCCCAGACCAATTTAAGAGCTCCTTTGACT
upper sequence: Vv15s0048g02600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G05580.1 (Glycine max), 3'ss of exon 7
-------------------------------------------------------gtaaggagcctcactcagatgccaaagttaattt-cagtgtacagagctcagagttttgctcactgcca-tgccagGTTGTTTTCTGCATTCACAACATAGCCTACCAAGGCAGATTTGCCTTTGCAGACTTCTCGCTTCTCAATCTCCCAGATGAATTCAAAAGCTCTTTCGACT
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gtaggtctaaatctcactggcttgttattctgtagtgatattatgtagatatttagttatttacctaatttaacattcatgatcaactcacaagctgttcaaattttctttctggttgcggtcaataccagGTTGTTTTTTGTATCCACAACATTGCTTACCAAGGAAGATTTGCATTCGCCGACTTCTCACTTCTAAATCTCCCAGACCAATTTAAGAGCTCCTTTGACT
upper sequence: Vv15s0048g02600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G31540.1 (Glycine max), 3'ss of exon 7
gtaaggagcctcactcagatgccaaagttaatttcagtgtaca------------gagctcagagttttgctcact-gccatgccagGTTGTTTTCTGCATTCACAACATAGCCTACCAAGGCAGATTTGCCTTTGCAGACTTCTCGCTTCTCAATCTCCCAGATGAATTCAAAAGCTCTTTCGACT
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gtgagaatttatttactttctgcatgtttgtcttcaccattcattctttctaggtaaactgactttccttttgactcatcatggcagGTTGCATTTTGTCTTCATAACATAGCCTACCAGGGTAGGCATGCCTTTGCAGACTTCTCTCTTCTCAATTTACCTCGCGAATTCAAGGGTTCTTTTGACT
upper sequence: Vv15s0048g02600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G36040.1 (Glycine max), 3'ss of exon 7
gtaagga-------gcctcactcaga--tgccaaagttaat--ttcagtgtacagagctcagagttttgctca--ctgccatgccagGTTGTTTTCTGCATTCACAACATAGCCTACCAAGGCAGATTTGCCTTTGCAGACTTCTCGCTTCTCAATCTCCCAGATGAATTCAAAAGCTCTTTCGACT
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gtgaggatttatttactttatgcatgtttgtcttcatcagtcattcattctagggaaactgactttccttttgacccatcatggcagGTTGCATATTGTATTCATAACATAGCCTACCAGGGTAGGCATTCCTTTGCAGACTTCTCTCTTCTCAATTTACCTAACAAATTCAAGAGCTCTTTTGACT
upper sequence: Vv15s0048g02600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G32900.1 (Arabidopsis thaliana), 3'ss of exon 7
---------------------------------------------------------------gtaaggagcctc--actcagatgccaaagttaat-ttcagtgtacagagc-tcagagttttgctcactgccatgccagGTTGTTTTCTGCATTCACAACATAGCCTACCAAGGCAGATTTGCCTTTGCAGACTTCTCGCTTCTCAATCTCCCAGATGAATTCAAAAGCTCTTTCGACT
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gtatagatataatttttgttccttcatcatgttaattagctattcatcttaaagtagcaaacattaccaaatcttgaactgaaactctagctttgatactttttacaatgaatatcaaaatatt--ttactttttt-ttagGTGGTCTTCTGCATTCACAACATAGCCTACCAGGGAAGATTTGCCTTTGATGACTATTCCCTTCTCAACTTGCCCATCAGCTTTAAAAGTTCTTTCGACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgccaaagttaatttcagtgtacagagctcagagttttgctcactgccatgccagGTTGTTTTCTGCATTCACAACATAGCCTACCAAGGCAGATTTGCCTTTGCAGACTTCTCGCTTCTCAATCTCCCAGATGAATTCAAAAGCTCTTTCGACT
tgctcac putative branch site (score: 2)
aagttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggagcctcactcagatgccaaagttaatttcagtgtacagagctcagagttttgctcactgccatgccagGTTGTTTTCTGCATTCACAACATAGCCTACCAAGGCAGATTTGCCTTTGCAGACTTCTCGCTTCTCAATCTCCCAGATGAATTCAAAAGCTCTTTCGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG