Sequence
atgc intronic sequence ATGC exonic sequencegtaaaagttttaaagtgtatttaataggcaaaaaatttattagttaatgagtaattgtttttaattatttctttgtccacaagGTAATTGCAATAGCATCTACTGCTCTAGATGGTTTCAAGAATGAGGCAAGAAAGATGGTCGTTGCACTAGTTGACATGGAGAGGGCATTCGTACCTCCCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G485898_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os08g32920.1 (Oryza sativa), 3'ss of exon 11
gtaaaagttttaaagtgtatttaataggcaaaaaatttattagttaatgagtaattgtttttaattatttctttgtccacaagGTAATTGCAATAGCATCTACTGCTCTAGATGGTTTCAAGAATGAGGCAAGAAAGATGGTCGTTGCACTAGTTGACATGGAGAGGGCATTCGTACCTCCCC
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---gtatcttcttaggattcataa-agagggaagctttcatgattcaccattagtaacatttt-ttatctccatttccgcaagGTAATTGCAATTGGATCTGCTGCTTTAGATGGCTTTAAAGATGAGGCTAAAAAGATGGTAATTGCACTAGTGGATATGGAACGAGCATTCGTGCCTCCCC
upper sequence: GRMZM2G485898_T02 (Zea mays), 3'ss of exon 11
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 11
---gtaaaagttttaaagtgtatttaataggcaaaaaatttattagttaatgagtaattgtttttaattatttctttgtccacaagGTAATTGCAATAGCATCTACTGCTCTAGATGGTTTCAAGAATGAGGCAAGAAAGATGGTCGTTGCACTAGTTGACATGGAGAGGGCATTCGTACCTCCCC
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gtaataatgattttttggtgc-tttattcagtaatat-tttatcatttcggtaacagttattcctttctgactaatcatcaaccagGTTGTAGCTATAGCAAGTGCAGCACTTGATGGTTTCAAGAATGAAGCCAAGAAAATGGTGGTTGCACTAGTTGATATGGAACGCGCTTTTGTACCACCTC
upper sequence: GRMZM2G485898_T02 (Zea mays), 3'ss of exon 11
lower sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 11
---------------------------------------------------gtaaaagttttaaagtg-tatttaataggcaaaaaatttattagttaatgagtaattgttt-ttaattatttctttgtccacaagGTAATTGCAATAGCATCTACTGCTCTAGATGGTTTCAAGAATGAGGCAAGAAAGATGGTCGTTGCACTAGTTGACATGGAGAGGGCATTCGTACCTCCCC
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gtaatcatgctgcaaatgctgcccctttttttttttaagagattccctcctttgatatgtttaatttgatatttttcaagttcaag-tttgttggcttttgtggtacaactcacttgtcataaatttttaaaccagGTTGTGGCAATTGCATCTACTGCACTGGAAGGGTTTAAGAATGAGGCAAAGAAAATGGTTGTTGCACTTGTTGATATGGAGCGTGCATTTGTTCCCCCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaaaaatttattagttaatgagtaattgtttttaattatttctttgtccacaagGTAATTGCAATAGCATCTACTGCTCTAGATGGTTTCAAGAATGAGGCAAGAAAGATGGTCGTTGCACTAGTTGACATGGAGAGGGCATTCGTACCTCCCC
ttttaat putative branch site (score: 3)
ttatttctttgtcc CT-rich tract
aatttattagttaatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaagttttaaagtgtatttaataggcaaaaaatttattagttaatgagtaattgtttttaattatttctttgtccacaagGTAATTGCAATAGCATCTACTGCTCTAGATGGTTTCAAGAATGAGGCAAGAAAGATGGTCGTTGCACTAGTTGACATGGAGAGGGCATTCGTACCTCCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG