Sequence
atgc intronic sequence ATGC exonic sequence...attggattctgttgtatagagctgccggagttttggtcttagaactcttgcattaaaatggatgatttgagtatatttgatggtcatctatgcttgttagATTGATGATGCAGAGCCGTTGGTGGAGATAGTAAAGCAAGCAGCTAAAGAAGGTGCAATGCTTGTTTACACTTTAGCTGACCCTTCAATGGCTGAATCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0116g00390.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os07g34640.1 (Oryza sativa), 3'ss of exon 1
-attggattctgtt-gta-tagagctgccggagttttggtcttagaactcttgcattaaaatggatgatttgagtatatttgatggtcatctatgcttgttagATTGATGATGCAGAGCCGTTGGTGGAGATAGTAAAGCAAGCAGCTAAAGAAGGTGCAATGCTTGTTTACACTTTAGCTGACCCTTCAATGGCTGAATCTG
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cactgaccctaatttgcacttgcattgactgataaatgaagctagctgtgtagttttcttgatattgattattttgtcttttgctacaaatt-tgctt--tagATTGATGACATGGATAGACTTATTGAGATAGTAAAGCAAGCAGCAAAAGAAGGAGCACTGGTTTTATATACTCTTGCTGATCCTTCAATGGCTGAGGCAA
upper sequence: Vv10s0116g00390.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G39830.1 (Glycine max), 3'ss of exon 1
attggattctgttgtatagagctgccggagttttggtcttagaact---cttgcattaaaatggatg-atttgagtatatttgatggtcatctatgcttgttagATTGATGATGCAGAGCCGTTGGTGGAGATAGTAAAGCAAGCAGCTAAAGAAGGTGCAATGCTTGTTTACACTTTAGCTGACCCTTCAATGGCTGAATCTG
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---ggctttacgcttccagagtt-ccagtatatcaatgcatatactaaatttcaatttttttagttatgtttggtaatgtttaaaatttgttgttattgattagATTGATGATGCAGAGAAGTTGTTGGAGATCACAAAGCAAGCAGCGAAGGAAGGTGCTTTCTTTGTGTATACTTTAGCTGACCCATCATTGGCTTCAGCTG
upper sequence: Vv10s0116g00390.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G27860.1 (Glycine max), 3'ss of exon 1
attg--gattctgttgtatagagctgccggagttttggtcttagaactcttgcattaaaatggatgatttgagtatatttgatggtcatctatgcttgttagATTGATGATGCAGAGCCGTTGGTGGAGATAGTAAAGCAAGCAGCTAAAGAAGGTGCAATGCTTGTTTACACTTTAGCTGACCCTTCAATGGCTGAATCTG
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aatgatgtctttatactatgagtatatcaatgtatatactatgtagtttcaatttttagtt--attgcttgggaatgtttaaattttgttgttattgattagATTGATGATACGGAGAAGTTGTTGGAGATCACAAAGCAAGCAGCGAAGGAAGGTGCTTTCCTTGTGTATACTTTAGCTGACCCATCATTGGCTTCAACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgcattaaaatggatgatttgagtatatttgatggtcatctatgcttgttagATTGATGATGCAGAGCCGTTGGTGGAGATAGTAAAGCAAGCAGCTAAAGAAGGTGCAATGCTTGTTTACACTTTAGCTGACCCTTCAATGGCTGAATCTG
atttgat putative branch site (score: 5)
atttgagtatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attggattctgttgtatagagctgccggagttttggtcttagaactcttgcattaaaatggatgatttgagtatatttgatggtcatctatgcttgttagATTGATGATGCAGAGCCGTTGGTGGAGATAGTAAAGCAAGCAGCTAAAGAAGGTGCAATGCTTGTTTACACTTTAGCTGACCCTTCAATGGCTGAATCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - ctgttgt
- - - - - - - - - - gctgccg
- - - - - - - - - - - - - - - - - - - - - - - - - -attaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatggt