Sequence
atgc intronic sequence ATGC exonic sequence...tgagaaggtatatggtatatcactgctgctgcatggattattttgtaatccattatgagcaacctcatgttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G02860.2 (Glycine max), 3'ss of exon 7
-tgagaaggtatatggtatatcactgctgctgcatggattattt-tgtaatccattatgagcaacctcatgttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG
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ttgaaatgactaaatgcagtcaaggattataatcaagattttatatatgttcaatcattgttggtctcttcttgcttttact-gtcttgagttc-tttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G06230.2 (Glycine max), 3'ss of exon 7
------tgagaaggtatatggtatatcactgctgctgcatggattattttgtaatccattatgagcaacctcatgttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG
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tagaaatgactaaatgcagtcaacaataatactcaagaatttataaatgttcaatc-attgttggtgtcttcttgcttttactgtct----tgagttc-tttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G44420.1 (Glycine max), 3'ss of exon 7
-tgagaa----ggtatatggtatatcactgctgctgcatggattattttgtaatccattatgagcaacctcatgttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG
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ttgagaactttggcttttgttgtaattttctttttcttt---ttaaatctttaccctgtgtggacgtcttcgtgctttatttatgaattatct--ttctatgcagATCTAGGAGCTCTAGGAAACTATCCTGGTTCACCATTTATGCAGTCTGATTCAGATATTTTGCTTGAATCATCGGATCAAAAGGACATAG
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G46420.2 (Arabidopsis thaliana), 3'ss of exon 7
-------------------------tgagaaggtatatggtatatcactgctgctgcatggattattttgtaatccat-tatgagca-acctcatg---ttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG----------
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gtaagctctttttatcaaatgccattgcgagtttagctcgaaaa--act-ttataacatacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttttactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAGGTAAACATTA
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G46420.1 (Arabidopsis thaliana), 3'ss of exon 7
-------------------------tgagaaggtatatggtatatcactgctgctgcatggattattttgtaatccat-tatgagca-acctcatg---ttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG
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gtaagctctttttatcaaatgccattgcgagtttagctcgaaaa--act-ttataacatacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttttactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAG
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G61700.1 (Arabidopsis thaliana), 3'ss of exon 7
-tgagaaggtatatggtatatcactgctgctgcatggattattttgtaatccattatg-agcaacctcatgttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG
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gtaagtttcaatgtcatccttctctttttatttctgg-ctatggaattgtcagttttataaagagctgattatcagataa-----agatatgtatgttgcagATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGACATAG
upper sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G61700.2 (Arabidopsis thaliana), 3'ss of exon 7
-tgagaaggtatatggtatatcactgctgctgcatggattattttgtaatccattatg-agcaacctcatgttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG
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gtaagtttcaatgtcatccttctctttttatttctgg-ctatggaattgtcagttttataaagagctgattatcagataa-----agATATGTATGTTGCAGATTTAGGAGCCTTAGGAAACTATCCAGGCTCTCCATTTCTTCCATCTGATTCAGAGATTTTCCTGGATTCTCCTGAACAAGAGGA----- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatccattatgagcaacctcatgttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG
ttttgat putative branch site (score: 4)
atgttttgataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgagaaggtatatggtatatcactgctgctgcatggattattttgtaatccattatgagcaacctcatgttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - -actgctg
- - - - - - - - - - - - - - - gcatgga
- - - - - - - - - - - - - - - - - - - - - - - aatccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caacctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtggtg