Sequence
atgc intronic sequence ATGC exonic sequence...gaaagaaagaattttagtagtttgatactaagactacaatagtaaaatttaataaactaggaagtataccggatcttgtgtttcttactatttatctcagATATTGTCAGCCTGCAAAATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G28630.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os08g40140.1 (Oryza sativa), 3'ss of exon 3
-----gaaagaaagaattttagtagtttgatactaagactacaatagtaaaatttaataaactaggaagtataccggatcttgtgtttcttactatttatctcagATATTGTCAGCCTGCAAAATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACACG
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attgaggattgcacagtcct-gtagtttgttatgtaaattggactactgcatcct--cagcttgagatctggttccctttttttcctattta--aatcatgtcagACATTGCTGGGCTTCAAAATGAAGATGGATCATTTTCTGGTGATATTTGGGGTGAAGTGGACACTAG
upper sequence: GLYMA05G28630.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G12210.2 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------------------------------------------gaaagaaagaattttagtagtttgatactaagactacaatagtaaaatttaataaactaggaagtataccggatcttgt-gtttcttactattta---tctcagATATTGTCAGCCTGCAAAATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACACG
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gtatccttttgcacttagctttttgtcaatgtcactaactcgttcttcttcacaaatagtcatggtggaactttcatatgttaattaatcaatgatgttaaacaagaaggaaaaaccctgccttatagtagatattattatgttttcctatatacaatattagATGTTGCTAAGTTGCAGAATGAAGATGGATCCTTCTCAGGAGATATGTGGGGAGAAATAGATACGAG
upper sequence: GLYMA05G28630.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G12070.1 (Arabidopsis thaliana), 3'ss of exon 3
gaaagaaagaattttagtagtttgatactaagactacaatagtaaaatttaataaactag--gaagtataccggatcttg-tgtttcttactatttatctcagATATTGTCAGCCTGCAAAATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACACG
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-gtatcctttacgcattcagcttcttgtcactgtgaaaataaataaactcggtaattcgtttgttgtagatacaattatgctttttctaaatgcaaaaactagATATTGCTGGGTTACAGAATGAAGATGGATCCTTCTCAGGAGATATATGGGGCGAAGTAGATACAAG
upper sequence: GLYMA05G28630.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0134g00150.t01 (Vitis vinifera), 3'ss of exon 4
--gaaagaaagaattttagtagtttgatactaagactacaatagtaaaatttaataaactagga-agtat--accggatcttgtgtttcttactatttatctcagATATTGTCAGCCTGCAAAATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACACG
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atggtctgacaaattt-----atatgttggcaaaattggaaatttaaattgcagtaaaacagggtagcttcagtcatttttagtttttcttgatccttgagtcagATATTGCTGGGCTGCAGAATGTAGATGGGTCCTTTTCAGGTGACATGTGGGGTGAAATTGATACACG
upper sequence: GLYMA05G28630.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0024g00080.t01 (Vitis vinifera), 3'ss of exon 4
gaaagaaagaattttagtagtt--tgatactaagactacaatagtaaaatttaataaactaggaagtataccggatcttgtgtttcttactatttatctcagATATTGTCAGCCTGCAAAATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACACG
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aggtctaagaaatttatatgttggtaaaattgaaaattttggtttgcaatgta--aaacagggtaatttcagtcattttgttgttcttgacccttgagttagATATTGCGGGGCTGCAGAATGAAGATGGGTCATTTTCAGGTGACATGTGGGGCGAAATTGATACGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttaataaactaggaagtataccggatcttgtgtttcttactatttatctcagATATTGTCAGCCTGCAAAATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACACG
tttcttact putative branch site
tttatctc putative PPT
tttcttactatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaagaaagaattttagtagtttgatactaagactacaatagtaaaatttaataaactaggaagtataccggatcttgtgtttcttactatttatctcagATATTGTCAGCCTGCAAAATGAAGATGGATCCTTTTCAGGGGATATGTGGGGTGAAGTTGATACACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
-aaagaaa
- - - - - - - - - - - - - - - -gactaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcttgtg