Sequence
atgc intronic sequence ATGC exonic sequencegtatatgctgcatgtacatttatttaacatgtttacctatagtctttcagtcctaattctgaatttttatgcttacatgagagttatgattcagATTATTGCTGCACACATCTGCTACTTAGTAGCAGAAGCCAATTTTGAGTCATATTCAGATAGCGCAAGACTGTGTCTTGTTGGTGCAGATCACTGGAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 8
gtatatgctgcatgtacatttatttaacatgtttacctatagtctttcagtcctaattctgaatttttatgcttacatgagagttatgattcagATTATTGCTGCACACATCTGCTACTTAGTAGCAGAAGCCAATTTTGAGTCATATTCAGATAGCGCAAGACTGTGTCTTGTTGGTGCAGATCACTGGAAAT
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---------gtacaattctgtcttttatttattttctttaatgactttggtacttttcc---attctgcttctcatttaagacacttattttagATTACTGCCGCACACATCTGCTATTTAGTTGCTGAAGCAAACTTTGAGTCATACTCAGATAGCGCAAGACTCTGTCTAATTGGAGCAGATCACTGGAAAT
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G03580.1 (Glycine max), 3'ss of exon 11
gtatatgctgcatgtacatttatttaacatgtttacctatagtctttcagtcctaattctgaatttttatgcttacatgagagttatgattcagATTATTGCTGCACACATCTGCTACTTAGTAGCAGAAGCCAATTTTGAGTCATATTCAGATAGCGCAAGACTGTGTCTTGTTGGTGCAGATCACTGGAAAT
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----gtacagttctgtcttttatttatcttcttta---atgactttt--gtactctttcc--attctgcttctcatttaagacacttattttagATTACTGCCGCACACATCTGCTATTTAGTTGCTGAAGCAAATTTCGAGTCATACTCAGATAGCGCAAGACTCTGTCTAATTGGAGCAGATCACTGGAAAT
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G41790.1 (Glycine max), 3'ss of exon 10
gtatatgctgcatgtacatttatttaacatgtttacctatagtctttcagtcctaattctgaatttttatgcttacatgagagttatgattcagATTATTGCTGCACACATCTGCTACTTAGTAGCAGAAGCCAATTTTGAGTCATATTCAGATAGCGCAAGACTGTGTCTTGTTGGTGCAGATCACTGGAAAT
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gtaca-gttgtctat-cttttatttattttcttta---atgacttttg-----tactttttcattctgcttctcatttaagactcttattttagATTACTGCCGCACACATCTGCTATTTAGTTGCTGAAGCAAACTTTGAGTCATACTCAGATAGCGCAAGACTCTGTCTAATTGGAGCAGATCACTGGAAAT
upper sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G03590.1 (Glycine max), 3'ss of exon 11
gtatatgctgcatgtacatttatttaacatgtttacctatagtctttcagtcctaattctgaatttttatgcttacatgagagttatgattcagATTATTGCTGCACACATCTGCTACTTAGTAGCAGAAGCCAATTTTGAGTCATATTCAGATAGCGCAAGACTGTGTCTTGTTGGTGCAGATCACTGGAAAT
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gtaca-gttgtcaat-cttttatttattttcttta---atgacttttg-----tatttttcaatctgctt-ctcatttaagactcttattttagATTACTGCCGCACACATCTGCTATTTAGTTGCTGAAGCAAACTTCGAGTCATACTCAGATAGTGCAAGACTCTGTTTAATTGGAGCAGATCACTGGAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtctttcagtcctaattctgaatttttatgcttacatgagagttatgattcagATTATTGCTGCACACATCTGCTACTTAGTAGCAGAAGCCAATTTTGAGTCATATTCAGATAGCGCAAGACTGTGTCTTGTTGGTGCAGATCACTGGAAAT
tgcttac putative branch site (score: 2)
taattctgaattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatgctgcatgtacatttatttaacatgtttacctatagtctttcagtcctaattctgaatttttatgcttacatgagagttatgattcagATTATTGCTGCACACATCTGCTACTTAGTAGCAGAAGCCAATTTTGAGTCATATTCAGATAGCGCAAGACTGTGTCTTGTTGGTGCAGATCACTGGAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA