Sequence
atgc intronic sequence ATGC exonic sequence...cacttcctcctctttttcagtttctttactacctttttttcttcaagcttttcttatttaattgggaacattggaaaatatatttgacagtttatttcagGTTTCCATGATGGAAAAAGATTTTTATCTTGGGCGAATATTGACTGGACGTGTTTCTTCTGGTGTTATCCGTGTTGGGGACAGAGTACATGGACTTCGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g02640.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g54910.1 (Oryza sativa), 3'ss of exon 5
cacttcctcctctttttcagttt---ctttactacctttttttcttcaagcttttcttatttaattgggaacattggaaaatatatttgacagtttatttcagGTTTCCATGATGGAAAAAGATTTTTATCTTGGGCGAATATTGACTGGACGTGTTTCTTCTGGTGTTATCCGTGTTGGGGACAGAGTACATGGACTTCGTA
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caccctagaatttatcttaaatttacctcttctgaagatatttatgtaaggttgtactggtaattcttaagc---ggagccagtaattcatagtcttctacagGTTTCCATGATGGAACGCGATTTTTATCTAGGACGAATACTGACTGGACGAGTAAGATCTGGGGTTGTCCGTGTTGGTGACAAAGTGCATGGTCTTCGTA
upper sequence: Vv12s0028g02640.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G43820.2 (Glycine max), 3'ss of exon 5
cacttcctcctctttttcagtttctttactacctttttttcttcaagcttttctta----tttaattgggaacattggaaaat-atatttgacagtttatttcagGTTTCCATGATGGAAAAAGATTTTTATCTTGGGCGAATATTGACTGGACGTGTTTCTTCTGGTGTTATCCGTGTTGGGGACAGAGTACATGGACTTCGTA
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-----ttctctcttttatgctctttgaattattggtttttccttgtacttcttttgcatgtatacttgggattagtgaaataccatgcttaatagtgcttttcagGTTTCAATGATGGAAAAAGATTTCTATCTTGGGCGAATTTTGACTGGACGCATATTCTCTGGGGTTGTTCGTGTTGGTGACAAGGTTCATGGATTACGTA
upper sequence: Vv12s0028g02640.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G14080.1 (Glycine max), 3'ss of exon 5
cacttcctcctctttttcagtttctttactacctttttttcttcaagctttt-cttatttaattgggaacattggaaaat-atatttgacagtttatttcagGTTTCCATGATGGAAAAAGATTTTTATCTTGGGCGAATATTGACTGGACGTGTTTCTTCTGGTGTTATCCGTGTTGGGGACAGAGTACATGGACTTCGTA
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--ctttctcttgtattctctttgaattattggtttttccttgtacttcttttgcatgtatacttgggattagtgaaataccatgcttaatagtgcttatcagGTTTCAATGATGGAAAAAGATTTCTATCTTGGGCGAATTTTGACCGGACGCATATACTCTGGGATTGTTCGTGTTGGTGACAGGGTTCATGGATTACGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcttttcttatttaattgggaacattggaaaatatatttgacagtttatttcagGTTTCCATGATGGAAAAAGATTTTTATCTTGGGCGAATATTGACTGGACGTGTTTCTTCTGGTGTTATCCGTGTTGGGGACAGAGTACATGGACTTCGTA
atttgac putative branch site (score: 4)
tttatttc putative PPT
aaaatatatttgacag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacttcctcctctttttcagtttctttactacctttttttcttcaagcttttcttatttaattgggaacattggaaaatatatttgacagtttatttcagGTTTCCATGATGGAAAAAGATTTTTATCTTGGGCGAATATTGACTGGACGTGTTTCTTCTGGTGTTATCCGTGTTGGGGACAGAGTACATGGACTTCGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - tcctcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaaat