Sequence
atgc intronic sequence ATGC exonic sequencegtgcatattccctctacttttatgctatacctttatttttgagtattaatatgaatctttatccagttaggtttgcacctgattatcctttcttttttcatatttttgattgacagCATCAACTATTAGCTGCTGTTAAATTTATAGCTCATCTTGTGAACCAGCAAGTGGCTCATGAGATAATTGCTTTGGAGCTGCTTGCTCTTATGTTGGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0045g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G14770.1 (Glycine max), 3'ss of exon 3
gtgcatattccctctacttttatgctatacctttatttttgagtattaatatgaatctttatccagttaggtttgcacctgattatcctttcttttttcatatttttgattgacagCATCAACTATTAGCTGCTGTTAAATTTATAGCTCATCTTGTGAACCAGCAAGTGGCTCATGAGATAATTGCTTTGGAGCTGCTTGCTCTTATGTTGGAAA
||| || | | | ||||| || | |||| | ||| | | | | | | | || | || || | || | | || | |||||| ||| | ||| |||| || |||| ||||||||||||||||| ||||| ||||| |||||||||||||||||||| |||||| | ||| | || | || | | || |
gtgtgtaattacccctctttt---tcttagatcagttttatgcttcaaattttattttatttgccttttgtttctcattttgttcttcatttgtctttcatcattt------atagCCTCAATTACTAGCAGCTGTTAAATTTATAGCGCATCTGGTGAATCAGCAAGTGGCTCATGAGATCATTGCTCTAGAGTTACTCACAGTTTTACTCGAGA
upper sequence: Vv15s0045g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G41440.2 (Glycine max), 3'ss of exon 4
gtgcatattccctctacttttatgctatacctttatttttgagtattaatatgaatctttatccagttaggtttgcacctgattatcctttcttttttcatatttttgattgacagCATCAACTATTAGCTGCTGTTAAATTTATAGCTCATCTTGTGAACCAGCAAGTGGCTCATGAGATAATTGCTTTGGAGCTGCTTGCTCTTATGTTGGAAA
||| || | | ||||| | || | | | |||| | | || || | ||||| | |||| || ||| | | | ||| | || | ||| | ||| |||| || |||| ||||||||||||||||| ||||| ||||| ||||||| |||||||||||| |||||| | ||| | || | || | | || |
gtgtgtaattaccactctttt-tcttagatc---aattttatgcttcaa-atttacttttatttgcct---tttgtttctcattgtgttcttcatttgtct-ttcatcatttatagCCTCAATTACTAGCAGCTGTTAAATTTATAGCGCATCTGGTGAATCAGCAAGCGGCTCATGAGATCATTGCTCTTGAGTTACTCACAGTTTTACTCGAGA
upper sequence: Vv15s0045g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G24660.1 (Glycine max), 3'ss of exon 1
gtgcatattccctctacttttatgctatacctttatttttgagtattaatatgaatctttatccagttaggtttgcacctgattatcctttcttttttcatatttttgattgacagCATCAACTATTAGCTGCTGTTAAATTTATAGCTCATCTTGTGAACCAGCAAGTGGCTCATGAGATAATTGCTTTGGAGCTGCTTGCTCTTATGTTGGAAA
| | | || || | | | | | |||| | || || | || ||||| || | |||| ||| | | ||| ||| | || | ||| | ||| |||| || |||| ||||| ||||||||||| ||||| ||||| ||||||| ||||||||||| |||||| | ||| | || | || | | || |
----gtgtggtgtgtagctt-gttttcttggatcaattttatgcatcaaatttgat-tttatt---tttgttttgtttctggatgtgtttttcatttgtct-ttcatcatttatagCCTCAATTACTAGCAGCTGTCAAATTTATAGCACATCTGGTGAATCAGCAAGCAGCTCATGAGATCATTGCTCTAGAGTTACTCACAGTTTTACTCGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccagttaggtttgcacctgattatcctttcttttttcatatttttgattgacagCATCAACTATTAGCTGCTGTTAAATTTATAGCTCATCTTGTGAACCAGCAAGTGGCTCATGAGATAATTGCTTTGGAGCTGCTTGCTCTTATGTTGGAAA
ttttgat putative branch site (score: 4)
ttatcctttctttttt CT-rich tract
tttcttttttcatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcatattccctctacttttatgctatacctttatttttgagtattaatatgaatctttatccagttaggtttgcacctgattatcctttcttttttcatatttttgattgacagCATCAACTATTAGCTGCTGTTAAATTTATAGCTCATCTTGTGAACCAGCAAGTGGCTCATGAGATAATTGCTTTGGAGCTGCTTGCTCTTATGTTGGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT