Sequence
atgc intronic sequence ATGC exonic sequence...ttcccctttttagtctttgctttgctatatgaccagtaaggatgagatccttctatttcttcaagtacggctgatgcaacttatattgttccgtttttagAGACCAGAAGATTTGTGGGCAATCCACTCTCAACCTGTCTTCCCAAAGCCTCACAAGAAGAATAACTCTTCTTGGATAGCAATACAAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G33560.1 (Glycine max), 3'ss of exon 10
-------------------------------------------------------------------ttcccctttttagtctttgctttgctatatgaccagtaaggatgagatccttctatttcttcaagtacggctgatgcaacttatattgttccgtttt----tagAGACCAGAAGATTTGTGGGCAATCCACTCTCAACCTGTCTTCCCAAAGCCTCACAAGAAGAATAACTCTTCTTGGATAGCAATACAAAAG----------
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gtaaggtattcctttttttgggttagcaacaccctacctatgcatatatttttcagatttcctttaatgcattattttatgtttttcatagctgtcatttgaagaagagtggtaaggtgct-ttttgtcagttatatttgatgata-tcatatgaatctgttttgttgcagAGACCAGAAGATTTGTGGGCAATTCATTCCCAACCTGTCTTTCCACGACCTCACAAAAAGGACAATCCTTCTTGGATAGCAATACAAAAGGTACCAATTT
upper sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G33560.2 (Glycine max), 3'ss of exon 10
--------------------------------------------------------------ttcccctttttagtctttgctttgctatatgaccagtaaggatgagatccttctatttcttcaagtacggctgatgcaacttatattgttccgtttt----tagAGACCAGAAGATTTGTGGGCAATCCACTCTCAACCTGTCTTCCCAAAGCCTCACAAGAAGAATAACTCTTCTTGGATAGCAATACAAAAG----------
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gtattcctttttttgggttagcaacaccctacctatgcatatatttttcagatttcctttaatgcattattttatgtttttcatagctgtcatttgaagaagagtggtaaggtgct-ttttgtcagttatatttgatgata-tcatatgaatctgttttgttgcagAGACCAGAAGATTTGTGGGCAATTCATTCCCAACCTGTCTTTCCACGACCTCACAAAAAGGACAATCCTTCTTGGATAGCAATACAAAAGGTACCAATTT
upper sequence: Vv03s0038g04210.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA16G19560.1 (Glycine max), 3'ss of exon 12
-------------------------------------------------------------------ttcccctttttagtctttgctttgctatatgacc--agtaaggatgagatccttctatttcttcaagtacggc---tgatgcaacttatattgttccgtttttagAGACCAGAAGATTTGTGGGCAATCCACTCTCAACCTGTCTTCCCAAAGCCTCACAAGAAGAATAACTCTTCTTGGATAGCAATACAAAAG
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gtaaggtattcattccttttgggttatcaataccctacctatgtatacattttcagatttccttgaatgcattattatatgtttttcatagttgtgtcatttgaagaagggtggaatggtgtt-tttcatcagttatatttaatgatgtcgtatgaatcttttatgttgcagAGACCAGAAGATTTGTGGGCAATTCATTCCCAACCCGTCTTTCCACGACCTCACAAGAAGGAAAATCCTTCTTGGATAGCGATACAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatccttctatttcttcaagtacggctgatgcaacttatattgttccgtttttagAGACCAGAAGATTTGTGGGCAATCCACTCTCAACCTGTCTTCCCAAAGCCTCACAAGAAGAATAACTCTTCTTGGATAGCAATACAAAAG
ggctgat putative branch site (score: 4)
ttccgttttt putative PPT
aacttatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcccctttttagtctttgctttgctatatgaccagtaaggatgagatccttctatttcttcaagtacggctgatgcaacttatattgttccgtttttagAGACCAGAAGATTTGTGGGCAATCCACTCTCAACCTGTCTTCCCAAAGCCTCACAAGAAGAATAACTCTTCTTGGATAGCAATACAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
-tcccctt
- - - - - - - - -tgctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgcaac