Sequence
atgc intronic sequence ATGC exonic sequence...cttggctgtgctggttatcattttctttcattgttactttcttttgtttactgctacatctgtgctctttgcttactctgctggttctgggtattcacagGTAAATAGAGACGTCAAAGACAATATGATGCAAAGCTTCTTCCTTGCTGAGACACTCAAATATCTCTATCTTCTTTTCTCACCTTCGTCAGTCATTTCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G128914_T01 (Zea mays), 3'ss of exon 13
cttggctgtgctggttatcattttctttcattgttactttcttttgtttactgctacatctgtgctctttgcttactctgctggttctggg-----tattcacagGTAAATAGAGACGTCAAAGACAATATGATGCAAAGCTTCTTCCTTGCTGAGACACTCAAATATCTCTATCTTCTTTTCTCACCTTCGTCAGTCATTTCAT
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--------------------gtaggtttcctcatgactcccattgatgaatttctgcggaataacatttgtctgacacaactattgttggaacatttgtcttcagGTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAGACGCTCAAGTACCTCTACCTACTTTTCTCCCCTCCATCAGTCATATCCT
upper sequence: Vv09s0054g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G23730.1 (Glycine max), 3'ss of exon 13
cttggctgtgctggttatcattttctttcattgtt--actttcttttgtttactgctacatctgtgctctttgcttactc--tgctggttctgggtatt-cacagGTAAATAGAGACGTCAAAGACAATATGATGCAAAGCTTCTTCCTTGCTGAGACACTCAAATATCTCTATCTTCTTTTCTCACCTTCGTCAGTCATTTCAT
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-----tcttgcttcctttgatatttatctaatgctggacaaccatttagtatcccaagcaactattctgcctactcatgtattatcacttgttcacatttctcagGTTAATAGTGGAGTCAAAGACAACATGATGCAAAGCTTCTTTCTTGCGGAGACCCTGAAGTATTTTTATCTTCTCTTCTCACCTTCTTCAGTCATCTCAT
upper sequence: Vv09s0054g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G02290.1 (Glycine max), 3'ss of exon 12
-cttggctgtgctggttatcattttctttcattgttactttcttttgtttactgctacatctgtgc-tctttgcttactctgctggttctgggtattcacagGTAAATAGAGACGTCAAAGACAATATGATGCAAAGCTTCTTCCTTGCTGAGACACTCAAATATCTCTATCTTCTTTTCTCACCTTCGTCAGTCATTTCAT
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tcttgcttcttttgatatttatctaatgctgg-acaaccatttagtatctcaagctactattctgcctactcatgtattataacttgttcacat-ttctcagGTTAATAGTGGAGTCAAAGACAACATGATGCAAAGCTTCTTTCTTGCGGAGACCCTGAAGTATTTTTATCTTCTCTTCTCACCTTCTTCTGTCATCCCAT
upper sequence: Vv09s0054g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G21160.1 (Arabidopsis thaliana), 3'ss of exon 13
-----------------------cttggctgtgc-tggttatcattttctttcattg-------ttactttcttttgtttactgctacatctgtg---ctctttgcttactct-gctggttctgggtattcacagGTAAATAGAGACGTCAAAGACAATATGATGCAAAGCTTCTTCCTTGCTGAGACACTCAAATATCTCTATCTTCTTTTCTCACCTTCGTCAGTCATTTCAT
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gtaagttttccgtaggcgcttaattagatcctgcattgttaaaaccttggtgaattgaattatatcattccaccatctatattagtaattgagtgtaactgatggtagattcttatttctttcaatcatttccagGTTAATACAGGCGTTAAGGACAACAAGATGCAAAGTTTCTTCCTTGCAGAGACACTCAAGTATCTCTATCTACTCTTCTCGCCGACAACAGTCATTCCTT
upper sequence: Vv09s0054g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 13
cttggctgtg---ctggttatcattttctttcattgttactttcttttgtttactgctacatctgt-----gctctttgcttactctgctggttctgggtattcacagGTAAATAGAGACGTCAAAGACAATATGATGCAAAGCTTCTTCCTTGCTGAGACACTCAAATATCTCTATCTTCTTTTCTCACCTTCGTCAGTCATTTCAT
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gtaagtttcgagccgggctgaccttaaccaatcagataccctcctcgagtgggcctttccatctttcggaaacacgttgttaacgtt--tgcttctt--cattttcagGTCAATACAGGTGCTAAAGACAACAAGATGCAAAGCTTCTTCTTAGCTGAGACTCTTAAGTATCTATATCTTCTCTTTTCGCCTTCATCTGTTATTTCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttactgctacatctgtgctctttgcttactctgctggttctgggtattcacagGTAAATAGAGACGTCAAAGACAATATGATGCAAAGCTTCTTCCTTGCTGAGACACTCAAATATCTCTATCTTCTTTTCTCACCTTCGTCAGTCATTTCAT
tgcttac putative branch site (score: 2)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttggctgtgctggttatcattttctttcattgttactttcttttgtttactgctacatctgtgctctttgcttactctgctggttctgggtattcacagGTAAATAGAGACGTCAAAGACAATATGATGCAAAGCTTCTTCCTTGCTGAGACACTCAAATATCTCTATCTTCTTTTCTCACCTTCGTCAGTCATTTCAT
cttggct
- - - -gtgctgg
- - - - - - - - - - - - - - - - - - - - - - - - - ctgctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctggttc