Sequence
atgc intronic sequence ATGC exonic sequencegttattgctgatatgatctcttccttgggaggattgatattattgttaagtatgaaagttcaggaataatttggtttatttcagGTTCTGAACAGAAAAAGGCAGCTTTGAGACTATTGGCAGTCAGCAAGTTGATCAATCAAGCAGTGGGAGATGCTTTAAGTGGGTTGCTTTTGGTAGAGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0106g00380.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os07g09720.1 (Oryza sativa), 3'ss of exon 5
--------------gttattgctg-atatgatctcttccttgggaggattgatattattgttaag------tatgaaagttcaggaataattt-----ggtttatttcagGTTCTGAACAGAAAAAGGCAGCTTTGAGACTATTGGCAGTCAGCAAGTTGATCAATCAAGCAGTGGGAGATGCTTTAAGTGGGTTGCTTTTGGTAGAGGC
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gtgaactcttcatgatttttccagcatttcttttctcttttgcattgttggatctatttgtttatggttgtcgtgatgtttccccctttccttttaccttttcacattagGTTCTTCACAACACCAAGCTGCTATGAGATTGTTGGCCACAAGTCAGCTAATTAATCAGGCAGTTGGAGATGCTTTAAGTGGAATGCTTTTGGTGGAGGC
upper sequence: Vv13s0106g00380.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G40950.1 (Glycine max), 3'ss of exon 7
gttattgctgatatgatctcttccttgggaggattgatattattgttaagtatgaaagttcaggaataatt--tggtttatttcagGTTCTGAACAGAAAAAGGCAGCTTTGAGACTATTGGCAGTCAGCAAGTTGATCAATCAAGCAGTGGGAGATGCTTTAAGTGGGTTGCTTTTGGTAGAGGC
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---gtttgttctaaggtttctgact----attttcacttcacttacaagattcaactaaacagaaatgtgtgattgttagtttcagGTTCAGAAGGGGAAAAAGCTGCTCTGAGATTATTGGCTGTCAGTAAGTTGATCAATCAAGCTGTTGGAGATGCTTTGAGTGGATTGCTCTTGGTGGAAGT
upper sequence: Vv13s0106g00380.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G22760.1 (Glycine max), 3'ss of exon 5
gttattgctgatatgatct-cttccttgggaggattgatattatt--gttaagtatgaaagttcaggaataatttggtttatttcagGTTCTGAACAGAAAAAGGCAGCTTTGAGACTATTGGCAGTCAGCAAGTTGATCAATCAAGCAGTGGGAGATGCTTTAAGTGGGTTGCTTTTGGTAGAGGC
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gtttgttctgaggtttctgactattttcacttcacttacaagattcaactaaatagaaatgt------gtgatt--gttagTTTCAGGTTCAGAAGGGGAAAAAGCTGCTCTGAGATTATTGGCTGTCAGTAAGTTGATCAATCAAGCTGTTGGAGATGCTTTGAGTGGATTGCTCTTGGT------
upper sequence: Vv13s0106g00380.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G10810.2 (Glycine max), 3'ss of exon 5
gttattgctgatatgatctcttccttgggaggattgatattatt--gttaagtatgaaagttcaggaataatttggtttatttcagGTTCTGAACAGAAAAAGGCAGCTTTGAGACTATTGGCAGTCAGCAAGTTGATCAATCAAGCAGTGGGAGATGCTTTAAGTGGGTTGCTTTTGGTAGAGGC
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gtttgttctgaggttctgactattttcacttcacttacaagattcaactaaacataaatgt------gtgatt--gttagttttagGTTCAGAAGGGGAAAAAGCTGCTCTGAGATTATTGGCTCTTAGTAAGTTGATCAATCAAGCTGTTGGAGATGCTTTGAGTGGATTGCTCTTGGTGGAAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggattgatattattgttaagtatgaaagttcaggaataatttggtttatttcagGTTCTGAACAGAAAAAGGCAGCTTTGAGACTATTGGCAGTCAGCAAGTTGATCAATCAAGCAGTGGGAGATGCTTTAAGTGGGTTGCTTTTGGTAGAGGC
gattgat putative branch site (score: 4)
tttatttc putative PPT
atattattgttaagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattgctgatatgatctcttccttgggaggattgatattattgttaagtatgaaagttcaggaataatttggtttatttcagGTTCTGAACAGAAAAAGGCAGCTTTGAGACTATTGGCAGTCAGCAAGTTGATCAATCAAGCAGTGGGAGATGCTTTAAGTGGGTTGCTTTTGGTAGAGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG