Sequence
atgc intronic sequence ATGC exonic sequence...acatttatttccagttctgtgtgctagccaatcaactacttcacctttgttttattgcaaatatttggtatgggcatttgatgtttttgttatattgcagTATTGAATTTGATCGTGATGATGAACTATTTGCTACCGCTGGAGTCTCGAAACGTATTAAAGTCTTCGAATTTTCCACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g53140.1 (Oryza sativa), 3'ss of exon 6
-----acatttatttccagttctgtgtgctagccaatcaactacttcacctttgttttattgcaaatatttggtatgggcatttgatgtttttgttatattgcagTATTGAATTTGATCGTGATGATGAACTATTTGCTACCGCTGGAGTCTCGAAACGTATTAAAGTCTTCGAATTTTCCACT
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gcataattttcatttccatgtctatctgtaatctcatatgtttttcagtcgcctaccttacatgagaatagggaatca-catt-gatatttct--taaat-gcagTATCGAATTTGACCGTGATGATGAGCTATTTGCTACTGCTGGAGTCTCAAAGCGCATCAAAGTCTTCGAGTTTTCTACA
upper sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 6
----------------------------------------------------------------------------acatttatttccagttctgtgtgctagccaatcaac-tacttcacctttgttttatt---gcaaatatttggta---tgggcatttga-tgtttt---tgttatattgcagTATTGAATTTGATCGTGATGATGAACTATTTGCTACCGCTGGAGTCTCGAAACGTATTAAAGTCTTCGAATTTTCCACT
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gtgcgttgaaatgcatgctatactatttaattacaattatttttttaactcccaaggtcagaaaacttttcttgatgtcaccctttttgctgttgttgaattgttaatttgcattcatcatattaattgtacttcagtaaataatgaacaaactgttgagttgagtatttcccatattttcttgcagTATAGAATTTGATCGAGATGATGAATTGTTTGCTACTGCTGGAGTTTCACGGCGGATCAAAGTTTTTGAGTTTTCCTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgttttattgcaaatatttggtatgggcatttgatgtttttgttatattgcagTATTGAATTTGATCGTGATGATGAACTATTTGCTACCGCTGGAGTCTCGAAACGTATTAAAGTCTTCGAATTTTCCACT
atttgat putative branch site (score: 5)
tttttgtt CT-rich tract
atttgatgtttttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acatttatttccagttctgtgtgctagccaatcaactacttcacctttgttttattgcaaatatttggtatgggcatttgatgtttttgttatattgcagTATTGAATTTGATCGTGATGATGAACTATTTGCTACCGCTGGAGTCTCGAAACGTATTAAAGTCTTCGAATTTTCCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA