Sequence
atgc intronic sequence ATGC exonic sequence...aggatatagggtagtagttgccttgaaatggaaagtaagcttgtggaagacaaagttggttgatgctgttgtctgttgaatgaatatgttgttcgtgcagGGCTGGAAGGCATTTTTTGAAGAACCAATCATGTTAATAGCATTTGTCTTGCTAGGAAGGAATCTGGAACAGAGAGCTAAAATTAAAGCTACCAGTGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0142g00400.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G315931_T01 (Zea mays), 3'ss of exon 5
-----------------------------------------------------------------------------aggatatagggtagtagttgccttgaaa---tggaaagtaagcttgtggaagacaaagttggttgatgctgt----tgtctgttgaatgaatatgttgttcg-------tgcagGGCTGGAAGGCATTTTTTGAAGAACCAATCATGTTAATAGCATTTGTCTTGCTAGGAAGGAATCTGGAACAGAGAGCTAAAATTAAAGCTACCAGTGATA
| || | ||||| || | | | || | | | || | | | || | |||| || | || ||| | |||| ||||||| |||||| |||||||||| |||||| | ||||| ||||| ||||| | ||||| | ||||||||| ||||| || ||| ||||||||||||||||||
gtagctcctactctatttttccaaaagattttttttggtttgttgcatgctttgcagatattgttggccagtttcatcgtttaaactcctttagttaccctctagctctataatatgttccgttaatttgcatcatggcatatcgccttaatatgtcagtagcttgcttatatcgttccatttacctgcagGGGTGGAAGACATTTTTTGAGGAACCAGTTATGTTGATAGCTTTTGTTCTTCTAGGGAAGAATCTGGAGCAGAGGGCAAAACTTAAAGCTACCAGTGATA
upper sequence: Vv12s0142g00400.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G315931_T02 (Zea mays), 3'ss of exon 5
aggatatagggtagtagttgccttgaaatggaaagtaagcttgtggaagacaaagttggttgatgctgttgtctgttgaatgaatatgttgttcgtgcagGGCTGGAAGGCATTTTTTGAAGAACCAATCATGTTAATAGCATTTGTCTTGCTAGGAAGGAATCTGGAACAGAGAGCTAAAATTAAAGCTACCAGTGATA------------------------------------------------------------
| | || | || | | | | | | ||||||| |||||| |||||||||| |||||| | ||||| ||||| ||||| | ||||| | ||||||||| ||||| || ||| ||||||||||||||||||
------------------------------------------------------------tatgtcagtagcttgcttatatcgttccatttacctgcaggggtggaagacattttttgaggaaccagttatgttgatagcttttgttcttctagggaagAATCTGGAGCAGAGGGCAAAACTTAAAGCTACCAGTGATATGACTGGACTGCTTAGTATTCTTCCATCTAAAGCACGCCTAATGGTGGATAATGATGCTG
upper sequence: Vv12s0142g00400.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G07710.1 (Glycine max), 3'ss of exon 5
aggatatagggtagtagttgccttgaaatggaaagtaag-cttgtggaagacaaagttggttgatgctgttgtctgttgaatgaa----tatgttgttcgtgcagGGCTGGAAGGCATTTTTTGAAGAACCAATCATGTTAATAGCATTTGTCTTGCTAGGAAGGAATCTGGAACAGAGAGCTAAAATTAAAGCTACCAGTGATA
| || || | ||| | || | ||| | ||||| || | || | | | | |||| ||||| | | |||| ||||||| |||||||| || ||||| |||||||| ||| |||| |||||||||||| ||||||||||||| |||||||||||||| |||||||| |||||||||
-----aaagtatatttgttttgtgaaattatgcagttggatttgtgatagtgtatgtaaatataaatttaattgtgttaaatgatcttttttaatgtttatgcagGGTTGGAAGGCCTTCTTTGAGGAACCAATTATGCTAATTGCATTTGTCTTGTTAGGAAGGAATCTCGAACAGAGAGCTAAGATTAAAGCAGCCAGTGATA
upper sequence: Vv12s0142g00400.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G24520.1 (Glycine max), 3'ss of exon 1
aggatatagggtagtagttgccttgaaatggaaagtaagcttgtggaagacaaagttggttgatgctgttgtctgttgaatgaa----tatgttgttcgtgcagGGCTGGAAGGCATTTTTTGAAGAACCAATCATGTTAATAGCATTTGTCTTGCTAGGAAGGAATCTGGAACAGAGAGCTAAAATTAAAGCTACCAGTGATA
| || || | ||| | || | | | | ||||| | | || | | | | |||| ||||| | | |||| ||||||| |||||||| || || || |||||||| ||| |||| |||||||| ||| ||||||||||||| |||||||||||||| |||||||| ||||||||||
----gaaagtatatttgttttgtgaaattatgcaattggattgtgataatgtatgtaaatataaatttaattgtgttaaatgatcttttttaatgtttttgcagGGTTGGAAGGCCTTCTTCGAGGAACCAATTATGCTAATTGCATTTGTTTTGTTAGGAAGGAATCTTGAACAGAGAGCTAAGATTAAAGCAACCAGTGATA
upper sequence: Vv12s0142g00400.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G33520.2 (Arabidopsis thaliana), 3'ss of exon 5
----aggatatagggtagtagttgccttgaaatggaaag-taagcttgtggaagacaaagttggttgatgctgttgtctgttgaatgaatatgttgttcgtgcagGGCTGGAAGGCATTTTTTGAAGAACCAATCATGTTAATAGCATTTGTCTTGCTAGGAAGGAATCTGGAACAGAGAGCTAAAATTAAAGCTACCAGTGATA
| | | | ||| | |||||| | | | || | || | | | ||| |||| | |||| || | | ||| | | |||||||||||| |||||||||| |||||| | ||||||||||| ||||| ||||| ||||||||||| ||||||||||||||||| ||||| ||||||||||
ttgtaagctg-ggagtatttaaacccttgacctccatatctatattggttcttgcgattgatggctgatattccaacctgtaaaac---tgttttga-catccagGGCTGGAAGACATTTTTTGAGGAACCAGTTATGTTAATAGCTTTTGTATTGCTGGGAAGGAATCTTGAACAGAGAGCTAAAATAAAAGCCACCAGTGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagacaaagttggttgatgctgttgtctgttgaatgaatatgttgttcgtgcagGGCTGGAAGGCATTTTTTGAAGAACCAATCATGTTAATAGCATTTGTCTTGCTAGGAAGGAATCTGGAACAGAGAGCTAAAATTAAAGCTACCAGTGATA
ggttgat putative branch site (score: 5)
aatgaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aggatatagggtagtagttgccttgaaatggaaagtaagcttgtggaagacaaagttggttgatgctgttgtctgttgaatgaatatgttgttcgtgcagGGCTGGAAGGCATTTTTTGAAGAACCAATCATGTTAATAGCATTTGTCTTGCTAGGAAGGAATCTGGAACAGAGAGCTAAAATTAAAGCTACCAGTGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - tgccttg
- - - - - - - - - - - - - - - -aaagtaa
- - - - - - - - - - - - - - - - - - - gcttgtg
- - - - - - - - - - - - - - - - - - - - - - - aagacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgaata