Sequence
atgc intronic sequence ATGC exonic sequencegtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatatttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g14260.2 (Oryza sativa), 3'ss of exon 7
gtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatatttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT
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---------------------gtaagtacagggcttcctatattcagattgcaatgtatttccc-catacttttctttgatgtatttatagtatataggcagtatatgattgtgtttccctttctcttgtagGCACTACAATATGAATCGCATCAGGCTTGTCTGGTCAAGCATATGGCATGTCTTGTCTGATTTTTTTGTTACAATTGGCTGCTCAGAGAATCTCTCAATT
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G058870_T01 (Zea mays), 3'ss of exon 7
gtatgaatcattctcaatttgtcttgttcatgttttagcat-accatattagtgcttcatttattatttatatttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT
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----------------gtaaggaat-ctgaggctttattatcattactacattgcaatgtgtttt-tttacatttct-gttcggtcttatagacagtgcatgattttttttttttttgccctcttgta----gGCATTACAATATGAACCGCATCAGACTTGTTTGGTCAAGTATATGGCATGTCTTGTCTGATTTTTTTGTCACCATTGGCTGCTCAGAAAATCTTTCAATC
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G45360.1 (Glycine max), 3'ss of exon 9
gtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatatttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT-----------------------------------------------------------
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--------------------------------------------------------------------------------------taattatactgtttgactttgaggtgatt-attctgta----acaggcactataatatgaaccgcatcaggcttgtgtggtcaagcatatggcatgttctctcagATTTCTTTGTAACCATTGGCTGTTCTGGAAACCTTTCAATTGCAATTTTTGCAATGGATTCCTTGCGTCAGTTGTCAATGAAATTTCTGGAGCGGGAGGA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G34560.1 (Glycine max), 3'ss of exon 8
gtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatatttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT
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-------------acaaatgtttgggcagagcatcaagcatatgattatgttgcatgattgattg---atgtttatatgctactacctgttgtttgactcgaatattatgtaa----------------cagGCACTATAATATGAACCGCATCAGGCTTGTGTGGTCAAGCATCTGGCATGTTCTCTCTGATTTCTTTGTAACTATTGGCTGTTCGGCAAACCTTTCAATT
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G40480.1 (Glycine max), 3'ss of exon 7
gtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatatttgtcagctgcta--ttaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT
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-----------------------------gagcattaggtttatgattttgtgattcgcgattaattaatctttatacactgctgccttagttatattgtttgactttgaggggatt-attctgta----acagGCACTATAATATGAACCGCATCAGGCTTGTATGGTCAAGCATTTGGCATGTTCTCTCTGATTTCTTTGTAACCATTGGCTGTTCTGGAAACCTTTCAATT
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G45340.1 (Glycine max), 3'ss of exon 7
gtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatatttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT
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-------------ccaaatgtttgggcagagcatcaagcatatgattatgttgcatgattggttg---atgtttatatgctgctatc-----tgttgtt-----------tgacccgattattatgtaacagGCACTATAATATGAACCGCATCAGGCTTGTGTGGTCAAGCATCTGGCATGTTCTCTCTGATTTTTTTGTAACTATTGGCTGTTCGGCAAACCTTTCAATT
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 7
gtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatatttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT
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-------------acaaatgtttgggcagagcatcaagcatatgattatgttgcatcattgattg---atgtttatatgctgctacctattgtctgacacgattattatgtaa----------------cagGCACTATAATATGAACCGCATCAGGCTTGTGTGGTCAAGCATCTGGCATGTTCTCTCTGATTTCTTTGTAACTATTGGCTGTTTGGCAAACCTTTCAATT
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G01960.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatatttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT
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--------------------------------------------gtaaggatcaatcttttctttacgatatctgtt--ttgtttttgctcactctctcttatttataccctgtttgttgtaatg---gcagGCACTATAACATGAACCGCATAAGACTTGTCTGGTCGAGCATCTGGCATGTGCTCTCTGATTTCTTTGTGACTATTGGCTGTTCTGATAACCTCTCCATT
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatatttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT
||| ||||| || | ||| | | |||| | |||| | | | || | | | || || || | || | | || || |||| ||||| | | | ||| |||| ||||||||||| || || |||||||| ||||||||||||||||| || || |||| ||||||||| |||||||| || |||||||| ||||| |||
gtaagaatc--tcctagtttcgttcctctctgttctctcatatactgc--atataagagacgttctctgttcttagcaactttaagtatgtagtctgacaattttctg-----tttgtcatttgtgaca--gGCATTATAACATGAATCGCATAAGGCTTGTTTGGTCAAGCATCTGGCAAGTGCTATCAGGTTTCTTTGTGACCATTGGATGCTCAGAGAATCTTTCTATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT
tgctaaa putative branch site (score: 2)
tttgttttcttttac putative PPT
tattaaaaattttgct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatatttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT