Sequence
atgc intronic sequence ATGC exonic sequence...aattcccgcattataatttgcttgtggtgcattgcattaaagctttggaattatatgactcataaaatttaccaaaagcttgttcttttttattttgcagAGCTTTGGTGGTTTTTGTGCGGTTACCTATTTGAGTTTTGCACCAAAAGGATTGAAACAAGTCCTTCTAACTGGGGGAATTCCTCCAATTGGAAGTGGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g06820.1 (Oryza sativa), 3'ss of exon 2
-----aattcccgcattataatttgcttgtggtgcattgcattaaagctttggaattatatgactcataaaatttaccaaaagcttgttcttttttattttgcagAGCTTTGGTGGTTTTTGTGCGGTTACCTATTTGAGTTTTGCACCAAAAGGATTGAAACAAGTCCTTCTAACTGGGGGAATTCCTCCAATTGGAAGTGGCT
| || | | ||||||| | || |||| | | | || | || || | | | | ||||| || | ||||| | |||||| |||||||| |||||||||||||||||||| ||| |||| ||||| || ||| | |||||||| |||| || | || |||| ||
cttcaggatattttatgttcaactgcttgtt-tatctttcattcgatgatggtcatctagcaccatattaattatgtt----gtctactctttcttcgactacagAGTTATGGTGGATTTTGTGCTGTTACCTATTTGAGTTTTGCTCCAGAAGGCCTGAAATCTGTTCTTTTGACTGGGGGGCTTCCACCTCTAGGGAGTGCCT
upper sequence: Vv15s0046g02160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G075488_T02 (Zea mays), 3'ss of exon 3
-----aattcccg--cattataatttgcttgtggtgcattgcattaaagctttggaattatatgactcataaaatttaccaaaagcttgttcttttttattttgcagAGCTTTGGTGGTTTTTGTGCGGTTACCTATTTGAGTTTTGCACCAAAAGGATTGAAACAAGTCCTTCTAACTGGGGGAATTCCTCCAATTGGAAGTGGCT
| || ||| | || | | |||||| ||||| | || |||| ||| | | | || || |||||||| | |||||| |||||||| ||||| |||||||||||||| ||| |||| ||||| || ||| | ||||| || | || ||| | ||| |
cttgcagtttttagttattgtccttcattcacaaagtcatgcattc---ttttggggtagtagcactct----gcttatgccatcatcgacctgttcgtaattgcagAGTTATGGTGGATTTTGTGCCGTTACATATTTGAGTTTTGCTCCAGAAGGCCTGAAATCTGTTCTTTTGACTGGAGGGCTCCCACCACTAGGAGAACCTT
upper sequence: Vv15s0046g02160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G47320.1 (Glycine max), 3'ss of exon 3
---aattcccgcattataatttgcttgtggtgcattgcattaaagctttggaattatatgactcataaaat-ttaccaaaagcttgttcttttttattttgcagAGCTTTGGTGGTTTTTGTGCGGTTACCTATTTGAGTTTTGCACCAAAAGGATTGAAACAAGTCCTTCTAACTGGGGGAATTCCTCCAATTGGAAGTGGCT
||| || || ||| | || || || | | || | |||| || | || | | || |||||| | | | |||||| |||||| |||||||| || || ||||||||||| ||||||||||||||||| ||||||||| ||||||| ||||||||||| |||||| |||| |
tagaatgcct---ttgtaacctttgaaaccaatatagccttggaattccatgcttgctt-actcttattctgtttctttttttctatttttttttttgtggtagAGCTATGGTGGATTTTGTGCAGTCACGTATTTGAGTTTCGCACCAAAAGGATTGAAGCAAGTCCTTATAACTGGAGGAATTCCTCCGATTGGAGGTGGAT
upper sequence: Vv15s0046g02160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G39020.1 (Glycine max), 3'ss of exon 3
--aattcccgcattataatttgcttgtgg--tgcattgcattaaagctttggaattatatgactcataaaatttaccaaaagcttgttcttttttatttt--gcagAGCTTTGGTGGTTTTTGTGCGGTTACCTATTTGAGTTTTGCACCAAAAGGATTGAAACAAGTCCTTCTAACTGGGGGAATTCCTCCAATTGGAAGTGGCT
| ||| ||| |||| | | || || ||| |||||||| ||| | |||| ||||||||||| || |||||| |||||| |||||||| || || |||||||||||||||||| ||||| |||| ||||||||| ||||||| ||||||||||| ||||| ||||| |
taggagctttggttagaatgcctttgtacctttgaaaccaatatagccttggaattccatgctt------gcttactcttcttccgttcttttttaattgtgatagAGCTATGGTGGATTTTGTGCAGTCACATATTTGAGTTTTGCACCACAAGGACTGAAGCAAGTCCTTATAACTGGAGGAATTCCTCCGATTGGCAGTGGAT
upper sequence: Vv15s0046g02160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G61540.1 (Arabidopsis thaliana), 3'ss of exon 3
--aattcccgcattataatttgcttgtggtgcattgcattaaagctttggaattatatgactcataaaatttaccaaaagcttgttcttttttattttgcagAGCTTTGGTGGTTTTTGTGCGGTTACCTATTTGAGTTTTGCACCAAAAGGATTGAAACAAGTCCTTCTAACTGGGGGAATTCCTCCAATTGGAAGTGGCT
|||| | || || ||| | | | ||| | || | | | | || ||| | | ||| | | || || | || | | | ||||| || ||||| |||||||| |||| ||| ||||||||||||| ||||| | |||||||| || ||||||| |||||||| |||||||| | | |
gtaatttgt-ctttgta--ttgtctattggtcatcttgcttcagttcttg--tcatttgatt--ttgtattcatc------tttttttcttcaaatctacagAGTTTCGGTGGCTTTTGTGCACTTACATATCTGAGTTTTGCACCCGAAGGACTCAAACAAGTGCTAATAACTGGAGGAATTCCACCAATTGGTAAAGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggaattatatgactcataaaatttaccaaaagcttgttcttttttattttgcagAGCTTTGGTGGTTTTTGTGCGGTTACCTATTTGAGTTTTGCACCAAAAGGATTGAAACAAGTCCTTCTAACTGGGGGAATTCCTCCAATTGGAAGTGGCT
cttgttcttttttatt CT-rich tract
ttatatgactcataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattcccgcattataatttgcttgtggtgcattgcattaaagctttggaattatatgactcataaaatttaccaaaagcttgttcttttttattttgcagAGCTTTGGTGGTTTTTGTGCGGTTACCTATTTGAGTTTTGCACCAAAAGGATTGAAACAAGTCCTTCTAACTGGGGGAATTCCTCCAATTGGAAGTGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- ttcccgc
- - - - - - - - - -gcttgtg
- - - - - - - - - - - - - -tgcattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taccaaa