Sequence
atgc intronic sequence ATGC exonic sequence...ccaatgaatttcactcatcacaagtttttgctcttatgattcttctgtaatgctggttctctggtatgttaacgagataaaattggctcttattctctagGGCCGAGTTGCACCATCTGGGACAAGGGACAGTACTTTGGAGATTCTTGTGGGAGATAATGGTTGGGTTGATCATTGTGAAAATGGAATTCTCTATTCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0116g01770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G39030.1 (Glycine max), 3'ss of exon 6
---ccaatgaatttcactcatcacaagtttttgctcttatgattcttctgtaatgctggttctctggtatgttaacgagataaaattggctcttattctctagGGCCGAGTTGCACCATCTGGGACAAGGGACAGTACTTTGGAGATTCTTGTGGGAGATAATGGTTGGGTTGATCATTGTGAAAATGGAATTCTCTATTCTT
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atataactttagtttattaatcacag--ttctgttttca-attcttcctgcaatatctttgcaatgaattcatttatttctgacttaagttggggtattatagGGCCCAGTTGCTGCAACTGGTACAAGAGATAGCACATTGCAGATTCTTGTTGGAGATAATGGCTGGGTCAATCATCGAGAAAATGGAATTCTCTATTCTT
upper sequence: Vv10s0116g01770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G04670.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------------------------------------------------------------------------ccaatgaatttcactcatcacaagtttt-----tgct------cttatgat------tcttctgtaatgctggttctctggtatgttaacgagataaaattggctct---tattctctagGGCCGAGTTGCACCATCTGGGACAAGGGACAGTACTTTGGAGATTCTTGTGGGAGATAATGGTTGGGTTGATCATTGTGAAAATGGAATTCTCTATTCTT
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gtatgttacttttagaagcttacaccaatattctataagtggaaacgtttacatcttttcatcttaaagccactcaaaacctacaatattgatttattataagctgtgagaatgctgagaactttacaaaccgttgtcttacccaattgcatctccttagca-gtaagacttataccatcaattttgtgtctttttcagGGACGAGTTGAACCTAATGGTACAAGGGATAGTACATTGGAGATTCTTGTGGGAGACAATGGATGGGTTAATCACCGTGAAAATGGGATCTTGTACTCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaatgctggttctctggtatgttaacgagataaaattggctcttattctctagGGCCGAGTTGCACCATCTGGGACAAGGGACAGTACTTTGGAGATTCTTGTGGGAGATAATGGTTGGGTTGATCATTGTGAAAATGGAATTCTCTATTCTT
tgttaac putative branch site (score: 2)
ctcttattctct putative PPT
agataaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccaatgaatttcactcatcacaagtttttgctcttatgattcttctgtaatgctggttctctggtatgttaacgagataaaattggctcttattctctagGGCCGAGTTGCACCATCTGGGACAAGGGACAGTACTTTGGAGATTCTTGTGGGAGATAATGGTTGGGTTGATCATTGTGAAAATGGAATTCTCTATTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
ccaatga
- - - - - -cactcat
- - - - - - - - - - - - - - - - - - - - - - - - aatgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gataaaa