Sequence
atgc intronic sequence ATGC exonic sequence...aattcatgtgatcctatttccttttggcttgtgtcactgcatttgcatcctcattcatcaccattaattgcaatgttgtattgggatggcacatatgcagGCTGTTCCACTCAGCGCACGAAAAACTAGTGGAGGTAACTCCGAAGGAATAGCACATTTCTTGCAGCTGCCACATTTCACAGAAGCAACTGTGAAAAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G009346_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g24180.1 (Oryza sativa), 3'ss of exon 9
----aattcatgtgatcctatttccttttggcttgtgtcactgcatttgcatcctcattcatcaccattaattgcaatgttgtattgggatggcacatatgcagGCTGTTCCACTCAGCGCACGAAAAACTAGTGGAGGTAACTCCGAAGGAATAGCACATTTCTTGCAGCTGCCACATTTCACAGAAGCAACTGTGAAAAAGA
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ctgttattgtcttgttttttcatttcattaccatggacaactgtattataagctcattttggtaccagta----taaagatttgtttgcctgcatattatatagGCTGTCCCTCTCAGTGCACGAAAAGCTAGCGGAGGCAACTCTGAAGGAATAGCACCTTTCTTGCAGCTACCGCATTTTACTGAAACGGTTGTCAAAAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catcctcattcatcaccattaattgcaatgttgtattgggatggcacatatgcagGCTGTTCCACTCAGCGCACGAAAAACTAGTGGAGGTAACTCCGAAGGAATAGCACATTTCTTGCAGCTGCCACATTTCACAGAAGCAACTGTGAAAAAGA
cattaat putative branch site (score: 3)
attaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattcatgtgatcctatttccttttggcttgtgtcactgcatttgcatcctcattcatcaccattaattgcaatgttgtattgggatggcacatatgcagGCTGTTCCACTCAGCGCACGAAAAACTAGTGGAGGTAACTCCGAAGGAATAGCACATTTCTTGCAGCTGCCACATTTCACAGAAGCAACTGTGAAAAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
-attcatg
- - - - tgatcct
- - - - - - - - - - - - - gcttgtg
- - - - - - - - - - - - - - - - - - ctgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aattgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgta