Sequence
atgc intronic sequence ATGC exonic sequence...agcttcatcctctatgaactttctgcgcataaatccatctgtgaaatttgtgtgtttagttgattgttttttctttctcttttttccctgttctatatagGATCTTCCTGGTGCACTTGATGATGCTGCTGTGACTGAGGCCTTAGAGTTGCACAAGATTAAAAACCGTCAATGGGCAATTTTTAAAACTTCTGCCATAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g01720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os08g15040.2 (Oryza sativa), 3'ss of exon 6
agcttcatcctctatgaactttctgcgcataaatccatctgtgaaatttgtgtgtttagttgat-tgttttttctttctcttttttccctgt--tctatatagGATCTTCCTGGTGCACTTGATGATGCTGCTGTGACTGAGGCCTTAGAGTTGCACAAGATTAAAAACCGTCAATGGGCAATTTTTAAAACTTCTGCCATAA
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---cattttctatacaaataagttggagatgctttattctatggcaacaatgtagacgcccaatatgatgtctcatgtgctgtcatgcctacaatgaatgcagGATCTTCCAGGTGCACTTGATGATGCTGCCATAACGGAATCATTAGAACTCCACAAGATTAAGAGCCGTCAATGGGCGATTTTCAAAACATCTGCCATAA
upper sequence: Vv11s0052g01720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G147726_T01 (Zea mays), 3'ss of exon 11
---agcttcatcctctatgaactttctgcgcataaatccatctgtgaaatttgtgtgtttagttgattgttttttctttctcttttttccctgttctatatagGATCTTCCTGGTGCACTTGATGATGCTGCTGTGACTGAGGCCTTAGAGTTGCACAAGATTAAAAACCGTCAATGGGCAATTTTTAAAACTTCTGCCATAA
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gtgtgccttatgttacttgtaccctgtaggttgtagctttgctgtactgtac-cgtgttttttttggcattttatctgacatgttagttgtt--ttcatgcagGATCTTCCAGGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTACACAAAATTAAGAGCCGCCAATGGGCGATTTTCAAAACATCTGCAATAA
upper sequence: Vv11s0052g01720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G147726_T04 (Zea mays), 3'ss of exon 4
agcttcatcctctatgaactttctgcgcataaatccatctgtgaaatttgtgtgtttagttgattgttttttctttctcttttttccctgttctatatagGATCTTCCTGGTGCACTTGATGATGCTGCTGTGACTGAGGCCTTAGAGTTGCACAAGATTAAAAACCGTCAATGGGCAATTTTTAAAACTTCTGCCATAA----------
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-------tgttacttgtaccctgtaggttgtagctttgctgtactgtac-cgtgttttttttggcattttatctgacatgttagttgtt--ttcatgcaggatcttccagGTGCACTCGATGATGCTGCCATTACAGAGTCATTAGAACTACACAAAATTAAGAGCCGCCAATGGGCGATTTTCAAAACATCTGCAATAAAGGGAGAGGG
upper sequence: Vv11s0052g01720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G24765.1 (Arabidopsis thaliana), 3'ss of exon 6
--------------------------------------------------------------------------agcttca--tcctctatgaactttctgcgcataaatc-catctgtgaaatttgtgtgtttagttgattgttttttctttctcttttttc-cctgttctatatagGATCTTCCTGGTGCACTTGATGATGCTGCTGTGACTGAGGCCTTAGAGTTGCACAAGATTAAAAACCGTCAATGGGCAATTTTTAAAACTTCTGCCATAA
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gttagtagtctctaaatgtttgctcttccgattagtttgggctgattcatctggaaatctgtattggtttctgttgctaaaaagctttagtttgttttgcatgcacaagacacttttttgctgatgaaaaatcta--taactatttggtctgagtttcattaaatcgacttaatttagGATCTTCCCGGTGCACTCGATGATGCGGCTGTTACAGAAGCCTTGGAGTTGCATAAGATAAAGAGTCGTCAATGGGCAATCTTCAAAACTTGTGCTGTGA
upper sequence: Vv11s0052g01720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G24765.2 (Arabidopsis thaliana), 3'ss of exon 6
agcttcatcctctatgaactttctgcgcataaatccatctgtgaaatttgtgtgtttagttgattgttttttctttctcttttttccctgttctatatagGATCTTCCTGGTGCACTTGATGATGCTGCTGTGACTGAGGCCTTAGAGTTGCACAAGATTAAAAACCGTCAATGGGCAATTTTTAAAACTTCTGCCATAA-------------------------------
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------------------------------ttttttgctgatgaaaaatctataactatttggtctgagtttcattaaat-------cgacttaatttaggatcttcccggtgcactcgatgatgcggctgttacagAAGCCTTGGAGTTGCATAAGATAAAGAGTCGTCAATGGGCAATCTTCAAAACTTGTGCTGTGAAAGGCGAGGGACTTTTCGAGGGATTGGACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgtgtgtttagttgattgttttttctttctcttttttccctgttctatatagGATCTTCCTGGTGCACTTGATGATGCTGCTGTGACTGAGGCCTTAGAGTTGCACAAGATTAAAAACCGTCAATGGGCAATTTTTAAAACTTCTGCCATAA
agttgat putative branch site (score: 5)
ttgattgttttttctt CT-rich tract
attgttttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcttcatcctctatgaactttctgcgcataaatccatctgtgaaatttgtgtgtttagttgattgttttttctttctcttttttccctgttctatatagGATCTTCCTGGTGCACTTGATGATGCTGCTGTGACTGAGGCCTTAGAGTTGCACAAGATTAAAAACCGTCAATGGGCAATTTTTAAAACTTCTGCCATAA
- - -catcctc
- - - - - - tatgaac
- - - - - - - - - -tttctgc
- - - - - - - - - - - - - - - aaatcca
- - - - - - - - - - - - - - - - - - - - - - - -ttgtgtg