Sequence
atgc intronic sequence ATGC exonic sequence...attctctttctgtacttatagttgtattaatgcctgtattattttgatttttgtttctaattttctgaaatgaactaattttttctctctctctcttcagATATTATGAAGGCCTGCAAAAGTGTGTTGGACTTTTTTCAGAGAATGGTCTGTATTCTCCTGATGAAATTGATCGTTTAGATGCCTTGTACAAATCGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G43760.1 (Glycine max), 3'ss of exon 8
---attctctttctgtacttatagttgtattaatgcctgtat-tattttgatttttgtttctaattttctgaaatgaactaattttttctctctctctcttcagATATTATGAAGGCCTGCAAAAGTGTGTTGGACTTTTTTCAGAGAATGGTCTGTATTCTCCTGATGAAATTGATCGTTTAGATGCCTTGTACAAATCGCTT
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taactcccttttcttgatacccgtttgtattttatcttgtatacaatcttaccaacgagttgaagct----aaacaattatatgtgcttcatgttgatgctcagATATTATGAAGGCCTCCAAAAATGTGTTGGATTATATTCAAAAAATGGTCATTATTCTCCTGATGAAATAGATCGGTTAGATGCCTTGTACAAAACACTT
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G01580.1 (Glycine max), 3'ss of exon 8
attctctttctgtacttatagttgtattaatgcctgtattattttgatttt--tgtttctaattttctgaaatgaactaattttttctctctctc-----tcttcagATATTATGAAGGCCTGCAAAAGTGTGTTGGACTTTTTTCAGAGAATGGTCTGTATTCTCCTGATGAAATTGATCGTTTAGATGCCTTGTACAAATCGCTT
| || || | ||| |||| | | |||||||| ||| | | || || | | |||| || |||| | | | || | ||||||||||||||||||| ||||| ||||||||| | | |||||| ||||| | ||||||| ||||||||| |||| |||||||||||||||| | | |||
-ataactcccttttcttg-----atattca-gtttgtattatcttgtatacaatcttactgactagttgaagctaaacaattatctgtgcttcatgttaatgctcagATATTATGAAGGCCTCCAAAAATGTGTTGGATTATATTCAGAAAATGGCCATTATTCTCTTGATGAAATAGATCAGTTAGATGCCTTGTACAGAACACTT
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G22180.1 (Glycine max), 3'ss of exon 8
attctctttctgtact-tatagttgtattaatgcctgtattattttgatttttgt-ttctaattttctgaaatgaactaattttt----tctctctctctcttcagATATTATGAAGGCCTGCAAAAGTGTGTTGGACTTTTTTCAGAGAATGGTCTGTATTCTCCTGATGAAATTGATCGTTTAGATGCCTTGTACAAATCGCTT
| || ||| ||| ||| |||| | ||| ||||| ||| ||| | | || || | || |||| | | | | | | || ||||||||||||||||| || ||||||||||||||| | | || ||| |||| | ||| ||||||||| |||| ||||| |||||| | ||||||||| | |||
---cgctgtctacactgtatttttgtgtatatg---atattagtttattttgcctactgtacttgtagaaactgaatttaagctcatgattcgtgttacttttcagATATTATGAAGGTCTCCAAAAGTGTGTTGGATTATATTTAGAAGATGGCCAGTACTCTCCTGATCAAATAGATCGGTTAGATTCATTGTACAAAACACTT
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G03850.1 (Glycine max), 3'ss of exon 8
--attctctttctgtacttatagttgtattaatgcctgtattattttgatttttgtttcta-attttctgaaatgaactaattttttctctctctctcttcagATATTATGAAGGCCTGCAAAAGTGTGTTGGACTTTTTTCAGAGAATGGTCTGTATTCTCCTGATGAAATTGATCGTTTAGATGCCTTGTACAAATCGCTT
| ||| ||||| || | | |||| || || |||||||| | ||| | | ||||| | || | | ||| | | || |||||||| |||||||| || ||||||||||||||| | | || ||| |||| | ||| ||||||||| |||| ||||| |||||| | ||||||||| | |||
gcagtctaca-ctgtatttttgtgtatattgatatttgc-ttattttgtctactgtacttgtagaaactgaatttaagtttatgattca-tgttactgttcagATACTATGAAGGTCTCCAAAAGTGTGTTGGATTATATTTAGAAGATGGCCAGTACTCTCCTGATCAAATAGATCGGTTAGATTCATTGTACAAAACACTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttttgtttctaattttctgaaatgaactaattttttctctctctctcttcagATATTATGAAGGCCTGCAAAAGTGTGTTGGACTTTTTTCAGAGAATGGTCTGTATTCTCCTGATGAAATTGATCGTTTAGATGCCTTGTACAAATCGCTT
aactaat putative branch site (score: 2)
ctaattttttctctct CT-rich tract
taattttctgaaatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attctctttctgtacttatagttgtattaatgcctgtattattttgatttttgtttctaattttctgaaatgaactaattttttctctctctctcttcagATATTATGAAGGCCTGCAAAAGTGTGTTGGACTTTTTTCAGAGAATGGTCTGTATTCTCCTGATGAAATTGATCGTTTAGATGCCTTGTACAAATCGCTT
- - -ctttctg
- - - - - - - - - - - - - -taatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgaa