Sequence
atgc intronic sequence ATGC exonic sequencegtacttcattctgactttacacagagcaaataatttttacaatcaattttctttcaaaattcttctaatgttgttcttgtttcatggtttagGTTCCCATTTATTGCCTGTGAGATATTTACTTGTGAAATTGATGTTATTTTTAAGACTTTAGTGGAGGAAGATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G08100.1 (Glycine max), 3'ss of exon 3
gtacttcattctgactttacacagagcaaataatttttacaatcaattttctttcaaaattcttctaatgttgttcttgtttcatggtttagGTTCCCATTTATTGCCTGTGAGATATTTACTTGTGAAATTGATGTTATTTTTAAGACTTTAGTGGAGGAAGATGAG
| | || | | | ||||| | ||||||||||| | | || | || | | || | ||| |||||||| ||||| |||||||||||||| ||||| |||||||||||||| ||||| ||||| || ||||| ||||| |||
------------gtatgtagttgcaactgaaaatttgtt---tcaattttcttgtttcacttttatcatctgataatttgtctatgatttagGTTTCCATTCATTGCCTGTGAGATCTTTACATGTGAAATTGATGTAATTTTGAAGACCTTGGTGGATGAAGAAGAG
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G29710.1 (Glycine max), 3'ss of exon 3
gtacttcattctgactttaca--cagagcaaataatttttacaatcaattttctttcaaaattcttctaatgttgttcttgttt---catggtttagGTTCCCATTTATTGCCTGTGAGATATTTACTTGTGAAATTGATGTTATTTTTAAGACTTTAGTGGAGGAAGATGAG
||| || | ||| | | |||||| || ||| | | ||||||| || ||||| ||| | | |||||| | || ||||| ||||| |||||||| ||||||||||| |||||||||||||| ||||| ||||| || || || || || |||
gtatgcagttgtaactgaaaatttgctgcaaatgatcttttta-ttaattttc----aactttcttgtaaccatctgattgtttgtctgtaattaagGTTTCCATTCATTGCCTGCGAGATATTTACATGTGAAATTGATGTCATTTTGAAGACCTTGGTTGATGATGAAGAG
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G20500.1 (Glycine max), 3'ss of exon 3
gtacttcattctgactttacacagagcaaataatttttacaatcaattttctttcaaaattcttctaatgttgttcttgtttcatggtttagGTTCCCATTTATTGCCTGTGAGATATTTACTTGTGAAATTGATGTTATTTTTAAGACTTTAGTGGAGGAAGATGAG
| | || | | | ||||| | |||| |||||| | | || | || | | || | ||| |||||||| || || ||| |||||||||| ||||| |||||||||||||| ||||| ||||| || ||||| ||||| |||
------------gtatgtagttgtaactgaaaatttgtt---tcaactttcttgtttcacttttatcatctgatcatttgtctatgatttagGTTTCCCTTCATTTCCTGTGAGATCTTTACATGTGAAATTGATGTAATTTTGAAGACCTTGGTGGATGAAGAAGAG
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G40050.1 (Glycine max), 3'ss of exon 3
gtacttcattctgactttacacagag--caaataatttttacaatcaattttctttcaaaattcttctaatgttgttcttgttt---catggtttagGTTCCCATTTATTGCCTGTGAGATATTTACTTGTGAAATTGATGTTATTTTTAAGACTTTAGTGGAGGAAGATGAG
||| | | |||| | | ||||| | ||| | ||| | |||||| ||||| ||| | | |||||| | || ||||| ||||| |||||||| ||||| ||||| |||||||||||||| ||||| ||||| || || || || || |||
gtatgcagctgttacttaaaatttgctccaaatgaactttt---tttattatttttcaactttcttgtaaccatctgattgtttgtctgtaattaagGTTTCCATTCATTGCCTGCGAGATTTTTACATGTGAAATTGATGTCATTTTGAAGACCTTGGTTGATGATGAAGAG
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S112_230V6.1 (Physcomitrella patens), 3'ss of exon 3
-------gtactt-cattctgactttacacagagcaaataatttttacaatcaattttctttcaaaattcttctaatgttgttcttgtttcatggtttagGTTCCCATTTATTGCCTGTGAGATATTTACTTGTGAAATTGATGTTATTTTTAAGACTTTAGTGGAGGAAGATGAG
|| || |||| || |||| || || | | | || ||| || || | || | | | ||||| || |||||||| || ||||| || || || || || ||||||||||||||||||||||| ||||| || |||
gcttcagttatttgcatttagattttatgtgtctttggcaaggttgcccgattttgatggttggttatttactgaaacttttatgtgatcattcttgcagGTTTCCGTTTATTGCGTGCGAGATTTTCACGTGCGAGATAGATGTTATTTTTAAGACTTTAGTTGAGGACGAAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacaatcaattttctttcaaaattcttctaatgttgttcttgtttcatggtttagGTTCCCATTTATTGCCTGTGAGATATTTACTTGTGAAATTGATGTTATTTTTAAGACTTTAGTGGAGGAAGATGAG
ttctaat putative branch site (score: 2)
ttcttgtttc putative PPT
aattttctttcaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttcattctgactttacacagagcaaataatttttacaatcaattttctttcaaaattcttctaatgttgttcttgtttcatggtttagGTTCCCATTTATTGCCTGTGAGATATTTACTTGTGAAATTGATGTTATTTTTAAGACTTTAGTGGAGGAAGATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG