Sequence
atgc intronic sequence ATGC exonic sequencegtaaaactcttagcaggctgcagaaggggatcaattgacgtctcaaagagttccttgttttgactaacacttctatatatgggcagATCCTTTGTATTGGCCAACGTTTGTCGTGGCCGTTGCTGCTGCCATTATTGCTAGCCAAGCTATGATATCAGGAGCATTTGCAATTATCTCGCAGTCCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g70490.1 (Oryza sativa), 3'ss of exon 7
gtaaaactcttagc---aggctgcagaaggggatca--attgacgt-ctcaaagagttccttgttttgactaacacttctatat-atgggcagATCCTTTGTATTGGCCAACGTTTGTCGTGGCCGTTGCTGCTGCCATTATTGCTAGCCAAGCTATGATATCAGGAGCATTTGCAATTATCTCGCAGTCCCT---------------------------------
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gtacaaacaataactaaagacagcaaacaaatgccatgatttgcacatttgaaatattagaactaacaaagaactcattggcattgttatcagacccattatattggccaacatttgtggtggcagTCGCAGCTGCCATAATTGCAAGCCAGGCTATGATATCTGGTGCATTCGCAATCATTGCTCAGTCCCAAATTCTAGGTTGTTTTCCACGAGTTCGTGTGAT
upper sequence: Vv01s0011g03020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G084779_T02 (Zea mays), 3'ss of exon 7
gtaaaactcttagcaggctgcagaaggggatcaattgacgtctcaaagagttccttgttttgactaacacttctatatatgggcagATCCTTTGTATTGGCCAACGTTTGTCGTGGCCGTTGCTGCTGCCATTATTGCTAGCCAAGCTATGATATCAGGAGCATTTGCAATTATCTCGCAGTCCCT
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gtaagga-catataagaatcaactaagaaaagacattaggtttggacgatcaaattctatgaacttatgaactt---tgttaccagGTCCATTGTACTGGCCAACATTTGTGGTGGCTGTAGCTGCTGCTATAATTGCAAGCCAAGCTATGATATCTGGTGCCTTTGCAATTATTGCTCAGTCCCA
upper sequence: Vv01s0011g03020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G45260.1 (Glycine max), 3'ss of exon 7
----------------------gtaaaactcttagcaggctgcagaaggg-gatcaattgacgt--ctcaaagagttccttgttttgactaacacttctatatatgg-----gcagATCCTTTGTATTGGCCAACGTTTGTCGTGGCCGTTGCTGCTGCCATTATTGCTAGCCAAGCTATGATATCAGGAGCATTTGCAATTATCTCGCAGTCCCT
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gtaagttgtttaattttaaagagcaagatgatcattaacgagtggaagttcgtttgattagtaaagctcaattaatcaattgatttttccccctatattaattgtgaataatgcagATCCCTTATATTGGCCAACATTTGTTGTTGCTGTTGCTGCTGCCATTATAGCTAGCCAGGCAATGATTTCGGGAGCATTCTCTATTATATCTCAGGCCCT
upper sequence: Vv01s0011g03020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G42480.1 (Glycine max), 3'ss of exon 6
-----------------------------------------gtaaaactcttagcaggctgcagaaggggatcaattgacgtctcaaagagttccttgttt-tgactaacacttctatata----tgggcagATCCTTTGTATTGGCCAACGTTTGTCGTGGCCGTTGCTGCTGCCATTATTGCTAGCCAAGCTATGATATCAGGAGCATTTGCAATTATCTCGCAGTCCCT
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gtaagttgtttaattttaaagagcaagaagatcattaacgagtggaagt-tcatttgattactgaagc---tcaattaataatgaaatgtttttttcccctatatatattaattgtgaataataacatgcagATCCCTTATATTGGCCAACATTTGTTGTGGCTTTTGCTGCTGCCATTATAGCCAGTCAGGCAATGATTTCAGGAGCATTCTCTATTATATCCCAGGCCAT
upper sequence: Vv01s0011g03020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G04750.1 (Glycine max), 3'ss of exon 7
------------------gtaaaactcttagcaggctgcagaaggggatcaattgacgtctcaa---agagttccttgttttgacta---acacttctatatatgggcagATCCTTTGTATTGGCCAACGTTTGTCGTGGCCGTTGCTGCTGCCATTATTGCTAGCCAAGCTATGATATCAGGAGCATTTGCAATTATCTCGCAGTCCCT
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gtacatctcttaaatttaaaagatctattgatacatttttttataatat-aatccatggtttaattggaatttccttttttttattccctacactgtcaataaaatgcagACCACTTATATTGGCCAACATTTGTTGTTGCTGTTGCTGCTGCCATCATAGCCAGTCAAGCAATGATTTCAGGAGCATTTTCTGTTATATCCCAAGCACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caattgacgtctcaaagagttccttgttttgactaacacttctatatatgggcagATCCTTTGTATTGGCCAACGTTTGTCGTGGCCGTTGCTGCTGCCATTATTGCTAGCCAAGCTATGATATCAGGAGCATTTGCAATTATCTCGCAGTCCCT
gactaac putative branch site (score: 1)
ttctatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaactcttagcaggctgcagaaggggatcaattgacgtctcaaagagttccttgttttgactaacacttctatatatgggcagATCCTTTGTATTGGCCAACGTTTGTCGTGGCCGTTGCTGCTGCCATTATTGCTAGCCAAGCTATGATATCAGGAGCATTTGCAATTATCTCGCAGTCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA