Sequence
atgc intronic sequence ATGC exonic sequence...gatttatatatatatattttgatagataaaaaggaatatatatttgtttttcagttattgctctattttttttattttcttgttattatttttcttgtagGAATCGCCTGCTACTTTGCATCTTAAATATCTGCAAAGATGTGTTGGGTCGTCTTCCCAAAGTTGTTGGTATTGATGTTGTAGAGATGGCTCTTTGGGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G18840.1 (Glycine max), 3'ss of exon 4
--gat-ttatatatatatattttgatagataaaaaggaatatatatttgtt---tttcagttattgctctattttttttattttcttgtt-attatttttcttgtagGAATCGCCTGCTACTTTGCATCTTAAATATCTGCAAAGATGTGTTGGGTCGTCTTCCCAAAGTTGTTGGTATTGATGTTGTAGAGATGGCTCTTTGGGCT
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gtaatattgttgagagaaatattaatctgttcacggagttaattagttgttgagttctatgtgaggggatgaaagttttctcatcgtgccgatcacttttcttgtagGAATCGCCTCCTTCTTTGCATCTTGAACATCTGTAAAGATGTTTTGGGTCGCCTTCCTAAGGTTGTTGGTATAGATGTTGTGGAGATGGCTCTTTGGGCT
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G36540.1 (Glycine max), 3'ss of exon 4
-------gatttatatatatat-attttgatagataaaaaggaatatatatttgtttttcagttattgctctattttttttattttcttgtt-attatttttcttgtagGAATCGCCTGCTACTTTGCATCTTAAATATCTGCAAAGATGTGTTGGGTCGTCTTCCCAAAGTTGTTGGTATTGATGTTGTAGAGATGGCTCTTTGGGCT
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gtaatattgttgagagaaatattaatctgttcatggagagttagttagtggttgagttctatgtgaggggatgaaagttttctcatcatgtccatcacttttcttgtagGAATCGCCTCCTTCTTTGCATCTTGAACATCTGTAAAGATGTTTTGGGCCGCCTTCCTAAGGTTGTTGGTATAGATGTTGTGGAGATGGCTCTTTGGGCT
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G03710.1 (Glycine max), 3'ss of exon 4
-------gatttatatatatatattttgatagataaaaaggaat---atatattt----gtttttcagttattgctctattttttttattttcttgt-tattatttttcttgtagGAATCGCCTGCTACTTTGCATCTTAAATATCTGCAAAGATGTGTTGGGTCGTCTTCCCAAAGTTGTTGGTATTGATGTTGTAGAGATGGCTCTTTGGGCT
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gttataccattaaaatgtata-atctaagcatgtagagtttaatcctttatggttttatgttatgtaacgaaagtggagtttggctcactgcatcgtctattacttctcttgtagAAATCGCCTCCTGTTTGGTATCTTAAATATCTGCAAAGATATCCTTGGTCGCCTGCCTAAGGTTGTTGGTATTGATGTTGTGGAGATGGCTCTTTGGGCT
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G47550.2 (Arabidopsis thaliana), 3'ss of exon 4
----------------------gatttatatatatatattttgatagataaaaaggaatatatatttgtttttcagttattgctctattttttt--tattttcttgttattatttttcttgtagGAATCGCCTGCTACTTTGCATCTTAAATATCTGCAAAGATGTGTTGGGTCGTCTTCCCAAAGTTGTTGGTATTGATGTTGTAGAGATGGCTCTTTGGGCT
||| | || | | ||| ||| | || || | |||| | | | | | || ||| || | | | | | | | ||||||||| || || || ||||||| || || || |||||||| || || || || ||||| |||||||||||||| ||| |||| |||||||| ||||||||
gtactgcagttagcaacatcaatattaactattacaagatgtgaagtatacatgataagcgatgatatttttgttgacgtagttttcttcatttaatacatacctttctctgtcatgattgtagGAACCGACTTTTAGTTTGCATATTGAACATATGCAAAGACGTATTAGGCCGCCTTCCAAAAGTTGTTGGTATAGATATTGTCGAGATGGCCCTTTGGGCA
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G47560.1 (Arabidopsis thaliana), 3'ss of exon 4
----------------------gatttatatatatatattttgatagataaaaaggaatatatatttgtttttcagttattgctctattttttt--tattttcttgttattatttttcttgtagGAATCGCCTGCTACTTTGCATCTTAAATATCTGCAAAGATGTGTTGGGTCGTCTTCCCAAAGTTGTTGGTATTGATGTTGTAGAGATGGCTCTTTGGGCT
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gtactgcagttagcaacatcaatattaactattacaagatgtgaagtatacatgataagcgatggtatttttgttgacgtagttttcctcatttaatacatacctttctctgtcgtgattgtagGAACCGACTTTTAGTTTGCATATTGAACATATGCAAAGACGTATTAGGCCGCCTTCCAAAAGTTGTTGGTATAGATATTGTCGAGATGGCCCTTTGGGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttttcagttattgctctattttttttattttcttgttattatttttcttgtagGAATCGCCTGCTACTTTGCATCTTAAATATCTGCAAAGATGTGTTGGGTCGTCTTCCCAAAGTTGTTGGTATTGATGTTGTAGAGATGGCTCTTTGGGCT
ctctattttttttatt CT-rich tract
ttattgctctattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatttatatatatatattttgatagataaaaaggaatatatatttgtttttcagttattgctctattttttttattttcttgttattatttttcttgtagGAATCGCCTGCTACTTTGCATCTTAAATATCTGCAAAGATGTGTTGGGTCGTCTTCCCAAAGTTGTTGGTATTGATGTTGTAGAGATGGCTCTTTGGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - -ataaaaa