Sequence
atgc intronic sequence ATGC exonic sequencegtatggcactatttgtgtatttacagaatttgagatagatatacttcattatcactctatcagtaactagcaaactgatatatatcggagggctaaaccgagcatacaagtggtgataataagggaatgtttttgcagGCATGGAGTGAATCAGCTAAGATATCCATGGTCTGATGGTCCTGAGTATATCACCCAGTGCCCTATTCAACCGGGCGGAAAGTTCAGCCAAAAGCTCATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0122g00390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G27480.1 (Glycine max), 3'ss of exon 2
gtatggcactatttgtgtatttacagaatttgagatagatatacttcattatcactctatcagtaactagcaaactgatatatatcggagggctaaaccgagcatacaagtggtgataataagggaatgtttttgcagGCATGGAGTGAATCAGCTAAGATATCCATGGTCTGATGGTCCTGAGTATATCACCCAGTGCCCTATTCAACCGGGCGGAAAGTTCAGCCAAAAGCTCATA
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-------actaattttg----------accgaaaattgagagacttaaaca-cattttacccatag--gacaatatgaaagaaatta-atttttagaacat---tgcaactaatc----tgagggaa----------gGCATGGAGTGAAACAACCAAGGAATCCATGGTCAGATGGCCCTGAATACATCACCCAGTGCCCCATCAAACCTGGTGGGAAATTCAGGCAGATGTTGATT
upper sequence: Vv18s0122g00390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G36310.1 (Glycine max), 3'ss of exon 1
gtatggcactatttgtgtatttacagaatttgagatagatatacttcattatcactctatcagtaact-agcaaactgatatatatcggagggctaaaccgagcatacaagtggtgataataagggaatgtttttgcagGCATGGAGTGAATCAGCTAAGATATCCATGGTCTGATGGTCCTGAGTATATCACCCAGTGCCCTATTCAACCGGGCGGAAAGTTCAGCCAAAAGCTCATA
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-------------------------------gtattgaattcaatcc-tagcaattctgtgagcaatagaaaaaaaaaacgcatgtatgaaaaatgaatcaaatgcctaattgactaaaactg----atttatggacagGCATGGAGTGAAGCAGCCAAGGAATCCATGGACAGATGGTCCTGCATACATTACTCAGTGCCCTATCCAACCTGGAAGGAGATTCAGACAGAAGTTGATT
upper sequence: Vv18s0122g00390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G31280.1 (Glycine max), 3'ss of exon 1
gtatggcactatttgtgtatttacagaatttgagatagatatacttcattatcactctatcagtaactagcaaactgatatatatcggagggctaaaccgagcatacaagtggtgataataagggaatgtttttgcagGCATGGAGTGAATCAGCTAAGATATCCATGGTCTGATGGTCCTGAGTATATCACCCAGTGCCCTATTCAACCGGGCGGAAAGTTCAGCCAAAAGCTCATA
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-----------gtattgaatttacaatcttagcaat-------tttgatgagcaatagaatag--agcatcacattaatggat----gaaaattaatcaaaatgcctaactaactagaactg----atttatggacagGCATGGAGTGAAGCAGCCAAGGAATCCATGGACAGATGGTCCTGCATACATCACTCAGTGCCCCATACAACCTGGAAGGAGATTCAGACAGAAGTTGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcggagggctaaaccgagcatacaagtggtgataataagggaatgtttttgcagGCATGGAGTGAATCAGCTAAGATATCCATGGTCTGATGGTCCTGAGTATATCACCCAGTGCCCTATTCAACCGGGCGGAAAGTTCAGCCAAAAGCTCATA
ggctaaa putative branch site (score: 3)
tgttttt putative PPT
tgataataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggcactatttgtgtatttacagaatttgagatagatatacttcattatcactctatcagtaactagcaaactgatatatatcggagggctaaaccgagcatacaagtggtgataataagggaatgtttttgcagGCATGGAGTGAATCAGCTAAGATATCCATGGTCTGATGGTCCTGAGTATATCACCCAGTGCCCTATTCAACCGGGCGGAAAGTTCAGCCAAAAGCTCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA