Sequence
atgc intronic sequence ATGC exonic sequencegtaagtatcatacaagttccatgattatgaatgcctttttttttttttgttcaatttctcttgattttctgatctgggcatgttgagaatttgtgtaaattctgtgagcaattttcattttcatttattttgtggtagGTATAGGCTAAAACACAGGAGAGTTAACATCAGAGCTGTGAAGCATTGGTGCAGACAGATCTTAAGGGGGCTGCTCTACCTCCACAACCATAAACCCCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g03380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G37180.1 (Glycine max), 3'ss of exon 3
gtaagtatcatacaagttccatgattatgaatgcctttttttttttttgt--tcaatttctcttgattttctgatctgggcatgttgagaatttgtgtaaattctgtgagcaattttcattttcatttattttgtggtagGTATAGGCTAAAACACAGGAGAGTTAACATCAGAGCTGTGAAGCATTGGTGCAGACAGATCTTAAGGGGGCTGCTCTACCTCCACAACCATAAACCCCCT
|||||| | || | | | || |||| | | | |||| | | ||||| ||||| | ||||| ||| || |||| | | || |||| || || ||| || ||||||||||||||| |||| |||||||||||||||||| |||||||||||||| ||||||||||| || || || ||||| || |||| || | || |||
-----------gtaagttctttagttgcaactacattattttctgtccaccattcatttttgtgcatttta-gatcttgtatagttga--attggttcttcttctttctg--atcttcacttgttttaattgtgaaatagGTATAGGCTAAAGCACAAGAGAGTTAACATCAGAGCAGTGAAGCATTGGTGTAGACAGATCTTGAGCGGACTTCTCTATCTTCACAGTCACGACCCGCCT
upper sequence: Vv05s0020g03380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G30210.1 (Glycine max), 3'ss of exon 3
gtaagtatcatacaagttccatgattatgaatgcctttttttttttttgttcaatttctcttgattttctgatctgggcatgttgagaatttgtgtaaattctgtgagcaattttcattttcatttattttgtggtagGTATAGGCTAAAACACAGGAGAGTTAACATCAGAGCTGTGAAGCATTGGTGCAGACAGATCTTAAGGGGGCTGCTCTACCTCCACAACCATAAACCCCCT
|||||| || | | | || ||| | || | | || ||| ||||| | ||||| |||| | | | || || | || || ||| | ||||||||||||||| |||| |||||||||||||||||| |||||||||||||| ||||||||||| || || || ||||| || || | || | || ||
-----------gtaagttcttcagttgcaactacattatttctgttcatcattcacttttgtgcgttttagatcttgtgtagttgaa---ttgtttcttcttcattc-tgatcttaacttgttttaattgtcaaatagGTATAGGCTAAAGCACAAGAGAGTTAACATCAGAGCAGTGAAGCATTGGTGTAGACAGATCTTGAGCGGACTTCTCTATCTTCATAGTCACGACCCACCG
upper sequence: Vv05s0020g03380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G28080.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtatcatacaagttccatgattatgaatgcctttttttttttttgttcaatttctcttgattttctgatctgggcatgttgagaatttgtgtaaattctgtgagcaattttcattttcatttattttgtggtagGTATAGGCTAAAACACAGGAGAGTTAACATCAGAGCTGTGAAGCATTGGTGCAGACAGATCTTAAGGGGGCTGCTCTACCTCCACAACCATAAACCCCCT
| ||| | ||| |||| | || || | || || | | | ||| |||| || | ||| || ||||||||||||||||| | |||||| ||||| ||||| || ||| ||||||| |||||||| ||||| || | ||| || || | ||| | || |||
------------------------------------------------------gtaagcttatctctct-atctca-taagtgaagttctcttgataacttactca-taat----gtttttatatctttcatg-cagGTATAGGCTAAAACATAAGAGAGTGAACATAAGAGCGGTAAAGAATTGGTGTAGACAGATTTTAAGAGGATTAAACTATCTTCATACACATGACCCTCCT
upper sequence: Vv05s0020g03380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G04910.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtatcatacaagttccatgattatgaatgcctttttttttttttgttcaatttctcttgattttctgatctgggcatgttgagaatttgtgtaaattctgtgagcaattttcattttcatttattttgtggtagGTATAGGCTAAAACACAGGAGAGTTAACATCAGAGCTGTGAAGCATTGGTGCAGACAGATCTTAAGGGGGCTGCTCTACCTCCACAACCATAAACCCCCT
| | |||||||| | | | ||| | ||| || || | | | || | ||||||||| | || ||||| || | ||| | |||||| ||||| |||||| ||||||||||||||||||| ||||| || || | | || || |||| |||| | || |||
-------------------------------------------------gtaagattctcttgtaaacatacttt---tctgtcgttggttttagtttatcttt--aacgat----aacttcatttatg--gatacagATATAGACTCAGACATAAGAGAGTGAACATAAGAGCTATGAAGCATTGGTGCAGACAAATCTTGAGAGGCTTACATTATCTTCACAGCCATGATCCTCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagaatttgtgtaaattctgtgagcaattttcattttcatttattttgtggtagGTATAGGCTAAAACACAGGAGAGTTAACATCAGAGCTGTGAAGCATTGGTGCAGACAGATCTTAAGGGGGCTGCTCTACCTCCACAACCATAAACCCCCT
ttttcatttatttt CT-rich tract
aattttcattttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtatcatacaagttccatgattatgaatgcctttttttttttttgttcaatttctcttgattttctgatctgggcatgttgagaatttgtgtaaattctgtgagcaattttcattttcatttattttgtggtagGTATAGGCTAAAACACAGGAGAGTTAACATCAGAGCTGTGAAGCATTGGTGCAGACAGATCTTAAGGGGGCTGCTCTACCTCCACAACCATAAACCCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT