Sequence
atgc intronic sequence ATGC exonic sequence...accgtaaacttaagtgcacttctgctcaacttcattcctccaaacgtaacgtatatcagaaatatattaattctattgacctgtgccacgattctgttagAATTGAGAATGGGTTAATTTGGCTATATCATGATCCAGGCATCTATTCACCAAATGCATACCGTGGTTTTGCTCGTGAATTTATTAAAGATTTAGAAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G402242_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g41565.1 (Oryza sativa), 3'ss of exon 7
accgtaaacttaagtgcacttctgctcaacttcattcctccaaacgtaacgtatatcagaaa--tatattaattctattgacctgtgccacgattctgttagAATTGAGAATGGGTTAATTTGGCTATAT--CATGATCCAGGCATCTATTCACCAAATGCATACCGTGGTTTTGCTCGTGAATTTATTAAAGATTTAGAAAGA-----
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-----------------------------------tgccatatacttga-atatgtcatgaacttttgacagtagtattatcttctacc--gactttg----agattaaatccatttaatttttctgtatttcataattcagGCATATATTCACCAAATGCATACCGTGGATTTGCTCGCGAATTTATTAAAGATCTGGAAAGGATGAG
upper sequence: GRMZM2G402242_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g52470.2 (Oryza sativa), 3'ss of exon 8
accgtaaacttaagtgcacttctgctcaacttcattcctccaaacgtaacgtatatcagaaatatattaattctattgacctgtgccacgattctgttagAATTGAGAATGGGTTAATTTGGCTATAT--CATGATCCAGGCATCTATTCACCAAATGCATACCGTGGTTTTGCTCGTGAATTTATTAAAGATTTAGAAAGA-----
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-------------------------------ccatactt---gaagtaatatgccatgaacttttgagagtagtattatcttctacc--gactttg----agatcaaatccatttaatttttccgtatttcacaattcagGCATATATTCACCAAATGCATACCGTGGATTTGCTCGCGAATTTATTAAAGATCTGGAAAGGATGAG
upper sequence: GRMZM2G402242_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv18s0001g00440.t01 (Vitis vinifera), 3'ss of exon 7
accgtaaacttaagtgcacttctgctcaacttcattcctccaaacgtaacgtatatcagaaatatattaattctattgacctgtgccac--gattctgttagAATTGAGAATGGGTTAATTTGGCTATATCATGATCCAGGCATCTATTCACCAAATGCATACCGTGGTTTTGCTCGTGAATTTATTAAAGATTTAGAAAGA-----
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----------------------------gatacgtttgcactatgggagtgc-catgttatgcattctaattttgcttgtctgtatcactcaatcttattagattttgtactg-----------ttgttttacatttcagGCATTTATTCTCCAAACGCATATCGTGGTTTTGCTCGTGAGTTCATTAAAGATTTGGAAAGGATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaacgtatatcagaaatatattaattctattgacctgtgccacgattctgttagAATTGAGAATGGGTTAATTTGGCTATATCATGATCCAGGCATCTATTCACCAAATGCATACCGTGGTTTTGCTCGTGAATTTATTAAAGATTTAGAAAGA
tattgac putative branch site (score: 2)
ttctgtt putative PPT
tatatcagaaatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accgtaaacttaagtgcacttctgctcaacttcattcctccaaacgtaacgtatatcagaaatatattaattctattgacctgtgccacgattctgttagAATTGAGAATGGGTTAATTTGGCTATATCATGATCCAGGCATCTATTCACCAAATGCATACCGTGGTTTTGCTCGTGAATTTATTAAAGATTTAGAAAGA
- - - - - - - - - cttctgc
- - - - - - - - - - - - - - - - cattcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - cagaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgtgc