Sequence
atgc intronic sequence ATGC exonic sequence...tattggatacccacaatctcttcatctggtttgattccaaacgtaatgatttgcagttaagagttccatatttgatacattaaaaattgttttgtttcagATGAACTCAGTTGATGCAGCCATTGACAGGAGGATATCTGAGGGCAGACTTGCTGGTCGAATGGCTTTCTAGCTTAACCGTAACATAGAGGGTTCAGAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0017g02160.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os09g38790.2 (Oryza sativa), 3'ss of exon 6
-----------------------tattggatacccacaatctcttcatctggtttgatt-ccaaacgtaatgatttgcagttaagagttccatatttgatacattaaaaattgttt-----tgttt---cagATGAACTCAGTTGATGCAGCCATTGACAGGAGGATATCTGAGGGCAGACTTGCTGGTCGAATGGCTTTCTAGCTTAACCGTAACATAGAGGGTTCAGAGT
| ||| | || | || | | | | | || | | | | ||||| | | || | || | ||| | ||||||||||||||||||||||| ||||| | || ||||| || | | |||||||| || ||||| | || || |||| | | | |
gtcagctttcattttggcccgtgagcctggtacttatgttcaaagagaagagattaactgctttttttttttgttcttaatcatgccaatcatatctaacaccgtctctcttctcccacaatgtgtgaacagATGAACTCAGTTGATGCAGCAATTGATCGAAGAATATCAGAAAGTCGGCTTGCTGGACGCATGGCCCTGTAAAACAAATTGAACACATGTCTCGTAAATT
upper sequence: Vv03s0017g02160.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os09g38790.3 (Oryza sativa), 3'ss of exon 6
--------tattggatacccacaatctcttcatctggtttgattccaaacgtaatgatttgcagttaagagttccatatttgatacattaaaaattgttttgtttcagATGAACTCAGTTGATGCAGCCATTGACAGGAGGATATCTGAGGGCAGACTTGCTGGTCGAATGGCTTTCTAGCTTAACCGTAACATAGAGGGTTCAGAGT
| | | | | || | | | |||| | || | | || | ||| | || | | | | | || ||| ||||||||||||||||||||||| ||||| | || ||||| || | | |||||||| || ||||| | || || |||| | | | |
cttatgttcaaagagaagagattaactgctttttttttttgttcttaatcatgccaatc-atatctaaca---ccgtctctcttctcccacaatgtgtgaa----cagATGAACTCAGTTGATGCAGCAATTGATCGAAGAATATCAGAAAGTCGGCTTGCTGGACGCATGGCCCTGTAAAACAAATTGAACACATGTCTCGTAAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgatttgcagttaagagttccatatttgatacattaaaaattgttttgtttcagATGAACTCAGTTGATGCAGCCATTGACAGGAGGATATCTGAGGGCAGACTTGCTGGTCGAATGGCTTTCTAGCTTAACCGTAACATAGAGGGTTCAGAGT
atttgat putative branch site (score: 5)
ttttgtttc putative PPT
atatttgatacattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattggatacccacaatctcttcatctggtttgattccaaacgtaatgatttgcagttaagagttccatatttgatacattaaaaattgttttgtttcagATGAACTCAGTTGATGCAGCCATTGACAGGAGGATATCTGAGGGCAGACTTGCTGGTCGAATGGCTTTCTAGCTTAACCGTAACATAGAGGGTTCAGAGT
- - - - -cccacaa
- - - - - - - - -ctcttca
- - - - - - - - - - - - - tggtttg
- - - - - - - - - - - - - - - - - -tccaaac
- - - - - - - - - - - - - - - - - - - - - - - - - -tgcagtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaat