Sequence
atgc intronic sequence ATGC exonic sequence...aattcagaacaacttacgatacattctgtatttctgttgctcccaactttgttatcttttaaattaaatttgaattaatacttattatccattggtgcagTTCTGCTGATATCTGGAGTGTTGGTTGCACGGTAATTGAAATGGCAATAGGCAAACCCCCATGGAGCCACGAATATCAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G064613_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os08g32600.1 (Oryza sativa), 3'ss of exon 7
aattcagaacaacttacgatacattctgtat--ttctgttgctcccaactttgttatcttttaaattaaatttgaattaatacttattatcca----ttggtgcagTTCTGCTGATATCTGGAGTGTTGGTTGCACGGTAATTGAAATGGCAATAGGCAAACCCCCATGGAGCCACGAATATCAAGAG
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---tgataaaatttcaccaagcttgctgttcgataccatatccagaaactatatgatggttttgttt---cttgaattaatccttgtcatctaactatctttgcagTTCAGCTGATATCTGGAGTGTCGGATGCACTGTAATTGAAATGGCAACTGGTAAAACTCCATGGAATCAGGAAATTCAAGAG
upper sequence: GRMZM2G064613_T03 (Zea mays), 3'ss of exon 7
lower sequence: AT1G54960.1 (Arabidopsis thaliana), 3'ss of exon 7
aattcagaacaacttacgatacattctgtatttctgttgctcccaactttgttatcttttaaattaaatttgaattaatacttattatccattggtgcagTTCTGCTGATATCTGGAGTGTTGGTTGCACGGTAATTGAAATGGCAATAGGCAAACCCCCATGGAGCCACGAATATCAAGAG
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-----------gtaagcattacttcaaacatgtttgtaattgctaggtta--catgctttgtcgccaatctaatattaccttggttattct---atgcagTTCTGCTGATATTTGGAGTGTAGGATGCACAGTGATTGAAATGGTGACTGGAAAAGCTCCTTGGAGCCAGCAATATAAAGAG
upper sequence: GRMZM2G064613_T03 (Zea mays), 3'ss of exon 7
lower sequence: Vv05s0020g02910.t01 (Vitis vinifera), 3'ss of exon 7
---------aattcagaacaacttacgatacattctgt-atttctgttgctcccaactttgttatcttttaaattaaatttgaattaatacttattatccattggtgcagTTCTGCTGATATCTGGAGTGTTGGTTGCACGGTAATTGAAATGGCAATAGGCAAACCCCCATGGAGCCACGAATATCAAGAG
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atctgctttgactcctatct-ccaatgaaataaaaagttattctttctgctccttatcttttgttctttggagctcatt---aatttggacatatatttta------cagCTCTGCTGATATATGGAGTGTTGGATGTACTGTTATTGAGATGGCTACAGGAAAACCTCCTTGGAGCCAGCAATATCAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actttgttatcttttaaattaaatttgaattaatacttattatccattggtgcagTTCTGCTGATATCTGGAGTGTTGGTTGCACGGTAATTGAAATGGCAATAGGCAAACCCCCATGGAGCCACGAATATCAAGAG
aattaat putative branch site (score: 3)
ttatcttttaaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattcagaacaacttacgatacattctgtatttctgttgctcccaactttgttatcttttaaattaaatttgaattaatacttattatccattggtgcagTTCTGCTGATATCTGGAGTGTTGGTTGCACGGTAATTGAAATGGCAATAGGCAAACCCCCATGGAGCCACGAATATCAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA