Sequence
atgc intronic sequence ATGC exonic sequencegttgttgcctttgacactatttcagcagtgattggcatcacatagttcatgaaataatgctgttttcctgcttttgtagactttcacttgatgctgtcagctattttcattttgacacctttccggttggttcattgtagGCCCAGAGCTATACTTGACATCATCAGATCAGGTGAAAAGTTTAGGATATCCACTTCTGCAAAAATGCCAGAGCAGGGAACATGTGAACGGTGTGGTTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g00440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os01g41565.1 (Oryza sativa), 3'ss of exon 8
------------gttgttgcctttgacactatttcagcagtgattggcatcacatagttcatgaaataatgctgttttcctgcttttgtaga-------ctttcacttgatgctgtcag---ctattttcattttgacacctttccggttg-gttcattgtagGCCCAGAGCTATACTTGACATCATCAGATCAGGTGAAAAGTTTAGGATATCCACTTCTGCAAAAATGCCAGAGCAGGGAACATGTGAACGGTGTGGTTAT
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gtaaaggcttctgttgtccaaaggaatgatcattatttttccatttgtgtttggtcatttgttggtaaatactagctttgtcatccagaagagagaagcctatttcttgcttctgcagtattttttttttatcttga-acttagtaaattatgattggtgcagACCTAGAGCTATACTGGACATCATAAAATCAGGTGAGAATTTTAGGATCTCCACAACAACAAGGATGCCAGAGCAAGGAACATGTGAACGTTGTGGCTAC
upper sequence: Vv18s0001g00440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g52470.2 (Oryza sativa), 3'ss of exon 9
------------gttgttgcctttgac-actatttcagcagtgattggcatcacatagttcatgaaataatgctgttttcctgctttt-gtagactttcacttgatgctgtcagctattttcattttgacacctttccggttggttcat------tgtagGCCCAGAGCTATACTTGACATCATCAGATCAGGTGAAAAGTTTAGGATATCCACTTCTGCAAAAATGCCAGAGCAGGGAACATGTGAACGGTGTGGTTAT
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gtaaaggcttctgttgtccaaaggaatgatcattatttttacatttgtgtttggtcatttcttggtaatgctttgtcatccagaagagagaagcctatttcttccttgcttctgaagttttttttttaatcttgaacttagtaaattatgaatggtgcagACCTAGAGCTATACTGGACATCATAAAATCAGGTGAGAATTTTAGGATCTCCACAACAACAAGGATGCCAGAGCAAGGAACATGTGAACGTTGCGGCTAC
upper sequence: Vv18s0001g00440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G402242_T03 (Zea mays), 3'ss of exon 8
gttgttgcctttgacactatttcagcagtgattggcatcacatagttcatgaaataatgctgttttcctgcttttgtagactttcacttgatgc-tgtcagctattttca-ttttgacacctttccggttggttcattgtagGCCCAGAGCTATACTTGACATCATCAGATCAGGTGAAAAGTTTAGGATATCCACTTCTGCAAAAATGCCAGAGCAGGGAACATGTGAACGGTGTGGTTAT
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-------------------------------------------------gtaaatactgaattttctccatatatatattcaatggatgtgtgcatgttctttttcagcagccttggctcagtagacgatgaat-gttgcagGCCTAGAGCTATACTAGACATCATAAAATCCGGTGAAAATTTCAGAATCTCCACAACAACAAGGATGCCAGAGCAAGGAACGTGTGAACGATGTGGCTAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgatgctgtcagctattttcattttgacacctttccggttggttcattgtagGCCCAGAGCTATACTTGACATCATCAGATCAGGTGAAAAGTTTAGGATATCCACTTCTGCAAAAATGCCAGAGCAGGGAACATGTGAACGGTGTGGTTAT
ttttgac putative branch site (score: 3)
tattttcattttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgttgcctttgacactatttcagcagtgattggcatcacatagttcatgaaataatgctgttttcctgcttttgtagactttcacttgatgctgtcagctattttcattttgacacctttccggttggttcattgtagGCCCAGAGCTATACTTGACATCATCAGATCAGGTGAAAAGTTTAGGATATCCACTTCTGCAAAAATGCCAGAGCAGGGAACATGTGAACGGTGTGGTTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG