Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcccattctcgaaccatcccgttgatttgtttgaaatgattaatataatcttctttagttaggtagtttgccaaataattatttttggagaatgctgtctcttaaatcatttagtctctaattctttccttctgcagTTCTAGGCTTGCCTTATGACCATCCCATGGATATTTGGTCTGTTGGTTGTTGTTTGTATGAGCTTTATACGGGAAAAGTTCTTTTTCCGGGTCCTTCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G24820.2 (Glycine max), 3'ss of exon 11
gtaagtcccattctcgaaccatcccgttgatttgtttgaaatgattaatataatcttctttagttaggtagtttgccaaataattattt-ttggagaatgc----tgtctcttaaatcatttagtctctaattctttccttctgcagTTCTAGGCTTGCCTTATGACCATCCCATGGATATTTGGTCTGTTGGTTGTTGTTTGTATGAGCTTTATACGGGAAAAGTTCTTTTTCCGGGTCCTTCAAA
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-------------------------------------------------gtaagtcccatagatttcataatcc-ctaactgtttttttcttgttcaatgtctcatggttgccaactgttttggcttttgaatgtttc--tatgcagTACTTGGCTTGCCATATGATCATCCACTGGATATTTGGTCTGTAGGTTGTTGTTTGTATGAGTTGTATATAGGGAAGGTTCTTTTCCCAGGGTTTACAAA
upper sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G42220.1 (Glycine max), 3'ss of exon 14
gtaagtcccattctcgaaccatcccgttgatttgtttgaaatgattaatataatcttctttagttaggtagtttgccaaataattatttttggagaatgctgtctcttaaatcatttagtctctaattctttccttctgcagTTCTAGGCTTGCCTTATGACCATCCCATGGATATTTGGTCTGTTGGTTGTTGTTTGTATGAGCTTTATACGGGAAAAGTTCTTTTTCCGGGTCCTTCAAA
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gtaagttccattc-------attgctatgatttat--gatttcataatcccaaactgtttttttcttgttgaatgcctcat-------------ggatgccaactgtt-------ttggcttttgaatgtttc--tatgcagTACTTGGCTTGCCATATGATCATCCATTGGATATTTGGTCTGTAGGTTGTTGTTTGTATGAGTTGTATATAGGGAAGGTTCTTTTCCCAGGTCTTACAAA
upper sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G20810.1 (Glycine max), 3'ss of exon 11
gtaagtcccattctcgaaccatcccgttgatttgtttgaaatg-attaatataatcttctttagt--taggtagtttgccaaataattatttttggagaatgctgtctcttaaatcatttagtctctaattctttccttctgcagTTCTAGGCTTGCCTTATGACCATCCCATGGATATTTGGTCTGTTGGTTGTTGTTTGTATGAGCTTTATACGGGAAAAGTTCTTTTTCCGGGTCCTTCAAA
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-------------------------gtaagttactttgcagtacagtaattgcatattcccaagtcctaaccatttttc----ttgtcattttgaatatttaatgggtttttact-gttgggctttcaaacttttc--tatgcagTACTTGGCTTACCCTATGATCATCCGTTGGATATGTGGTCTGTAGGATGTTGTTTGTATGAACTCTATACAGGGAAAGTTCTTTTTCCAGGTTTTACTAA
upper sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G25840.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagtcccattctcgaaccatcccgttgatttgtttgaaatgattaatataatcttctttagttaggtagtttgccaaataattatttttggagaatgctgtctcttaaatcatttagtctctaattctttccttctgcagTTCTAGGCTTGCCTTATGACCATCCCATGGATATTTGGTCTGTTGGTTGTTGTTTGTATGAGCTTTATACGGGAAAAGTTCTTTTTCCGGGTCCTTCAAA
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-------------------------------------------------gtaagtatcatattttgggttgtaaa--gaggacttttcattggtgaagaatat-------gtgactgaagcttctattctttccat-tgcagTTCTGGGGCTCACCTATGACCATCCGTTGGATATATGGTCTGTTGGCTGCTGTCTGTATGAGCTTTATAGTGGAAAAGTTCTTTTCCCTGGCGCCACAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttggagaatgctgtctcttaaatcatttagtctctaattctttccttctgcagTTCTAGGCTTGCCTTATGACCATCCCATGGATATTTGGTCTGTTGGTTGTTGTTTGTATGAGCTTTATACGGGAAAAGTTCTTTTTCCGGGTCCTTCAAA
ctctaat putative branch site (score: 3)
tctctaattctttcct CT-rich tract
tcttaaatcattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcccattctcgaaccatcccgttgatttgtttgaaatgattaatataatcttctttagttaggtagtttgccaaataattatttttggagaatgctgtctcttaaatcatttagtctctaattctttccttctgcagTTCTAGGCTTGCCTTATGACCATCCCATGGATATTTGGTCTGTTGGTTGTTGTTTGTATGAGCTTTATACGGGAAAAGTTCTTTTTCCGGGTCCTTCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT