Sequence
atgc intronic sequence ATGC exonic sequence...aatgtaaatttatcagtcagctggaatactatgtcatggtaggagggattaatataaccattggatgggtgcttcatgtagtttatttttcctattgcagGTTTGGAAGATTTCCCCCAGTTGTGAGGACAGCAGTACCTGTGGATGGGAGGTTTGAGCACATAGTACTTTCTTGCAATGTGACTTCGGACCATGCCATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02650.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os09g39580.1 (Oryza sativa), 3'ss of exon 1
aatgtaaatttatcagtcagctggaatact-atgtcatggtaggagggattaatataaccattggatgggtgcttcatgtagtttatttttcct--attgcagGTTTGGAAGATTTCCCCCAGTTGTGAGGACAGCAGTACCTGTGGATGGGAGGTTTGAGCACATAGTACTTTCTTGCAATGTGACTTCGGACCATGCCATC
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--tgataatttattaatgttttgtcttgttcagattactactcttttg-ttacaatagagatttccaagcatgatcataaacgaacttgttcctgaattccagGTGTGGAAGATACCCCCCAGTGGTGAAAACAGCTGTGCCTGTGGATGGTAGATTTGAGCATATAGTTCTTTCCTGCAATGCCACAATGGACCATGCCATT
upper sequence: Vv15s0046g02650.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g29794.1 (Oryza sativa), 3'ss of exon 3
-aatgtaaatttatcagtcagctggaatactatgtcatggtaggagggattaatataaccattggatgggtgcttcatgtagtttatttttcctattgcagGTTTGGAAGATTTCCCCCAGTTGTGAGGACAGCAGTACCTGTGGATGGGAGGTTTGAGCACATAGTACTTTCTTGCAATGTGACTTCGGACCATGCCATC
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aaatgctcagggaaaatattctttcagtttttactttttctaattttgat-acctcaagtttagaataaatattccattgaacgcttgctggtagctgcagATGTGGAAGATATCCCCCTGTTGTAAGAACAGCTGTTCCGGTGGATGGCAGATTTGAGCACATTGTGCTATCTTGCAACATGATTTCTGATCATGCTATT
upper sequence: Vv15s0046g02650.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G085939_T01 (Zea mays), 3'ss of exon 3
-aatgtaaatttatcagtcagctggaatactatgtcatggtaggagggattaatataaccattggatgggtgcttcatgtagtttatttttcctattgc--agGTTTGGAAGATTTCCCCCAGTTGTGAGGACAGCAGTACCTGTGGATGGGAGGTTTGAGCACATAGTACTTTCTTGCAATGTGACTTCGGACCATGCCATC
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tgatattgaacttgca--cagctgttttac-atttcttggtcagagtactggttgttgctagtgaagtttccgaaaacacactgaattccttgaaacgcacagGTGCGGAAGATATCCACCGGTAGTCAAAACAGCTGTGCCGGTGGATGGTAGATTTGAGCACATAGTTCTTTCCTGCAATGCCACAGCGGACCATGCCATT
upper sequence: Vv15s0046g02650.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G07750.1 (Glycine max), 3'ss of exon 3
aatgtaaatttatcagtcagctggaatactatgtcatggtaggagggattaatataaccattggatgg--gtgcttcatgtagtttatttttcctattgcagGTTTGGAAGATTTCCCCCAGTTGTGAGGACAGCAGTACCTGTGGATGGGAGGTTTGAGCACATAGTACTTTCTTGCAATGTGACTTCGGACCATGCCATC
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cagattaatgtatgcttaaattatgaagttat--caaattagatgagcagaatattatctgtatgtagcaataatttggattatagtctcttctggttgcagGATAGGAAGACTTCCACCTGTCGTTAGGACAGCAGTACCTGTTGATGGGAGGTTTGAGCATTTAGTTCTTTCTTGCAATGCAACTTCTGACCATGCCATC
upper sequence: Vv15s0046g02650.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G01200.1 (Glycine max), 3'ss of exon 3
aatgtaaatttatcagtcagctggaatactatgtcatggtaggagggattaatataaccattggatgg--gtgcttcatgtagtttatttttcctattgcagGTTTGGAAGATTTCCCCCAGTTGTGAGGACAGCAGTACCTGTGGATGGGAGGTTTGAGCACATAGTACTTTCTTGCAATGTGACTTCGGACCATGCCATC
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cacaattatgtatgcttaaattatgaagttat--caaattagatgagcggaatattatctgtatgtagcaataatttggattatagtctcttctgattgtagGATAGGAAGACTTCCACCTGTCGTTAGAACAGCAGTACCTGTTGATGGGAGGTTTGAGCATTTAGTTCTTTCTTGCAATGCAACTTCTGACCATGCCATC
upper sequence: Vv15s0046g02650.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G07750.4 (Glycine max), 3'ss of exon 3
------------aatgtaaatttatcagtcagctggaatacta----tgtcatggtaggagggattaatataaccattggatgg--gtgcttcatgtagtttatttttcctattgcagGTTTGGAAGATTTCCCCCAGTTGTGAGGACAGCAGTACCTGTGGATGGGAGGTTTGAGCACATAGTACTTTCTTGCAATGTGACTTCGGACCATGCCATC
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aagagttccgttcatccagattaat--gtatgcttaaattatgaagttatcaaattagatgagcagaatattatctgtatgtagcaataatttggattatagTCTCTTCTGGTTGCAGGATAGGAAGACTTCCACCTGTCGTTAGGACAGCAGTACCTGTTGATGGGAGGTTTGAGCATTTAGTTCTTTCTTGCAATGCAAC---------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggattaatataaccattggatgggtgcttcatgtagtttatttttcctattgcagGTTTGGAAGATTTCCCCCAGTTGTGAGGACAGCAGTACCTGTGGATGGGAGGTTTGAGCACATAGTACTTTCTTGCAATGTGACTTCGGACCATGCCATC
atataac putative branch site (score: 3)
tttatttttcctatt putative PPT
atgtagtttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgtaaatttatcagtcagctggaatactatgtcatggtaggagggattaatataaccattggatgggtgcttcatgtagtttatttttcctattgcagGTTTGGAAGATTTCCCCCAGTTGTGAGGACAGCAGTACCTGTGGATGGGAGGTTTGAGCACATAGTACTTTCTTGCAATGTGACTTCGGACCATGCCATC
aatgtaaa
- - - - - - - - - - - ggaatac
- - - - - - - - - - - - - - - - - catggta
- - - - - - - - - - - - - - - - - - - - - - - - - - -ataacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggatggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgta
