Sequence
atgc intronic sequence ATGC exonic sequencegtctgtctatggtttgagctattctcctctcttgatcataaaatgtgacattccttacttgctaatgatctgttcttttatgtgtgatttatttttgataagattttcgttttttggtcattcatcagATAGTTTTCTTTGGGATAGACAATATACATGCAATGAGGGAGAGTTTTGCTCGGCTCAGGGACTACTTAGACACTTATGGCACTGCTTCATCAGATGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0074g00300.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G34510.1 (Glycine max), 3'ss of exon 5
gtctgtctatggtttgagctattctcctctcttgatcataaaatgtgacattccttactt--gctaatgatctgttcttttatgtgtgatttatttttgataagattttcgttttttggtcat-tcatcagATAGTTTTCTTTGGGATAGACAATATACATGCAATGAGGGAGAGTTTTGCTCGGCTCAGGGACTACTTAGACACTTATGGCACTGCTTCATCAGATGGAA
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------------------------gtctgtaataaacttgaagtggtccagttgtgatttttgttttccagttataattataaatttgactttattttctaagtatctaaattcttattttatattatcagATAGTCTTTTTGGGGATAGACAACATCCATGCGATGAGAGAGAGCTTTGTTCGGCTCCGAGAATACATGGACACTCATGGCAGAACGTCATCAGATGGAA
upper sequence: Vv13s0074g00300.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA20G33040.1 (Glycine max), 3'ss of exon 5
gtctgtctatggtttgagctattctcctctcttgatcataaaatgtgacattcct-tacttgctaatgatctgttcttttatgtgtgatttatttttgataagattttcgttttttggtcat-tcatcagATAGTTTTCTTTGGGATAGACAATATACATGCAATGAGGGAGAGTTTTGCTCGGCTCAGGGACTACTTAGACACTTATGGCACTGCTTCATCAGATGGAA
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------------------------gtctgtaataagcttgaagtgtccagttgtgatttttgttttccagttataattataaatttgactttattttctaactatctaaattcttattttatattatcagATAGTCTTTTTGGGGATAGACAACATCCATGCGATGAGAGAGAGCTTTGTTCGGCTCCGAGAATACATGGACACTCATGGAAGAACGTCATCAGATGGAA
upper sequence: Vv13s0074g00300.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 11
gtctgtctatggtttgagctattctcctctcttgatcataaaatgtgacattccttacttgctaatgatctgttcttttatgtgtgatttatttttgataagattttcgttttttggtcattcatcagATAGTTTTCTTTGGGATAGACAATATACATGCAATGAGGGAGAGTTTTGCTCGGCTCAGGGACTACTTAGACACTTATGGCACTGCTTCATCAGATGGAA
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------------------------------gttagtgaatggtcttggtggt--ttgattattaaagtcttgatcttctg-gaattccatgattttagtga---ctatgtttctt------tcttcagATTGTTTTCTTTGGCATAGACAACATACATGCAATGAGGGAGAGCTTTTCCCGCGTTAGAGATTATTTAGATATGCACGGTACAACATCATCCGATGGGA
upper sequence: Vv13s0074g00300.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT5G04540.1 (Arabidopsis thaliana), 3'ss of exon 11
gtctgtctatggtttgagctattctcctctcttgatcataaaatgtgacattccttacttgctaatgatctgttcttttatgtgtgatttatttttgataagattttcgttttttggtcattcatcagATAGTTTTCTTTGGGATAGACAATATACATGCAATGAGGGAGAGTTTTGCTCGGCTCAGGGACTACTTAGACACTTATGGCACTGCTTCATCAGATGGAA
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-------------------------------gtctgtacatggcctaaagtggtttggagctcaatattttgtcttctg--gaactgcttgttttgactgacaat---gtttttt-------cttcagATTGTTTTTTTGGGGATAGACAACATACATGCAATGAGAGAGAGCTTTTCCCGCCTTAGGGATTATTTAGATATGCATGGTACAACATCATCCGATGGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttttatgtgtgatttatttttgataagattttcgttttttggtcattcatcagATAGTTTTCTTTGGGATAGACAATATACATGCAATGAGGGAGAGTTTTGCTCGGCTCAGGGACTACTTAGACACTTATGGCACTGCTTCATCAGATGGAA
ttttgat putative branch site (score: 4)
atttatttttgataag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgtctatggtttgagctattctcctctcttgatcataaaatgtgacattccttacttgctaatgatctgttcttttatgtgtgatttatttttgataagattttcgttttttggtcattcatcagATAGTTTTCTTTGGGATAGACAATATACATGCAATGAGGGAGAGTTTTGCTCGGCTCAGGGACTACTTAGACACTTATGGCACTGCTTCATCAGATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA