Sequence
atgc intronic sequence ATGC exonic sequencegtattactacttccttttgttcttattcagaaattacacttgtagtaaaataacgtttatgcttgaaattgcaacttctggtcttatcatagGATGAATCTGGAACAGCAGCTATAAAAACTGTTGAGCTTGATACTGTTCTTGGAGGGCGTGCAGTACAACACAGAGAACTTCAAGGCTACGAGTCTGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g24220.1 (Oryza sativa), 3'ss of exon 4
gtattactacttccttttgttcttat-tcagaaattacacttgtagtaaaataacgtttatgcttgaaattgcaacttctggtcttatcat--agGATGAATCTGGAACAGCAGCTATAAAAACTGTTGAGCTTGATACTGTTCTTGGAGGGCGTGCAGTACAACACAGAGAACTTCAAGGCTACGAGTCTGACA
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----------gtacattttctctaacatctcaagtttcatgtactgataaatggcatttccagcccacttcttgatttgatgtgttctcattcagGATGAAGCTGGGACTGCAGCAATTAAGACAGTTGAACTTGACACCATGCTCGGAGGTCGTGCAGTGCAGCACAGAGAACTTCAAGGCTATGAATCTGATA
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G21350.2 (Glycine max), 3'ss of exon 3
gtattactacttccttttgtt--cttattcagaaattacacttgtagtaaaataacgtttatgctt----gaaattgcaactt---------ctggtctta-tcatagGATGAATCTGGAACAGCAGCTATAAAAACTGTTGAGCTTGATACTGTTCTTGGAGGGCGTGCAGTACAACACAGAGAACTTCAAGGCTACGAGTCTGACA
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--------atttagatgtgttgagttatttggaaagggcaggggttaggagggttcatagttgctttgacaaaataataatcttggctgacactgattttacttctagGATGAGGCTGGAACTGCAGCCATTAAAACTGTTGAACTTGATGCTGCTCTTGGAGGGCGTGCAGTGCAGCACAGGGAAATCCAAGGACATGAGTCCGACA
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G29280.1 (Glycine max), 3'ss of exon 3
-gtattactacttccttttgttcttattcagaaattaca-cttgtagtaaaataacgtttatgcttgaaattgcaact--tctggt----cttatcatagGATGAATCTGGAACAGCAGCTATAAAAACTGTTGAGCTTGATACTGTTCTTGGAGGGCGTGCAGTACAACACAGAGAACTTCAAGGCTACGAGTCTGACA
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ttttctctttctggttctaaagttggtttatgtatgatggttcaaagtttggaaattcttgaaccaataatctctattgatatggtgattttccttgtagGATGAGGCTGGAACAGCAGCCATTAAAACTGTTGAACTCGATGCGTCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCCGACA
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 2
----------gtattactacttccttttgttctt-----attcagaaattacact-tgtagtaaaataacgtttatgcttgaaattgcaacttctggtctta-tcatagGATGAATCTGGAACAGCAGCTATAAAAACTGTTGAGCTTGATACTGTTCTTGGAGGGCGTGCAGTACAACACAGAGAACTTCAAGGCTACGAGTCTGACA
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gaaagggcaggggttaccatggttcatagtcgtttggaaatccttaaaccaatctctttgacaaaataatagtcttggttgaca---------ctgattttacttgtagGATGAGGCTGGAACTGCGGCCATTAAAACTGTTGAACTTGATGCTGCTATTGGAGGGCGTGCAGTGCAGCACAGGGAAATCCAAGGGCATGAGTCTGACA
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 4
-------------gtattactacttcc--ttttgttcttattcagaaattacacttg--tagtaaaataacgtttatgcttgaaattgcaacttctggtcttatcatagGATGAATCTGGAACAGCAGCTATAAAAACTGTTGAGCTTGATACTGTTCTTGGAGGGCGTGCAGTACAACACAGAGAACTTCAAGGCTACGAGTCTGACA
||| | | | ||| | || || | | || | ||| | | | ||||| | ||| ||| || | | || | | ||||||| ||||||||||||| || |||| |||||| || ||| | ||||||||| |||||||| |||||||| ||| ||||||| | || |||||||
aaagtgagtttatatatgatggttcacaatttggaaattcttgaaccaatatatttggatggaagaataatctctat---tgatatggtgattttccattt------agGATGAGGCTGGAACAGCAGCCATTAAAAATGTTGAACTCGATGCATCTCTTGGAGGACGTGCAGTGCAACACAGGGAAATTCAAGGGCATGAATCTGACA
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 4
gtattactacttccttttgttcttattcag---aaattacacttgtagtaaaat--aacgtttatgcttgaaattgc-aacttctggtcttatcat---agGATGAATCTGGAACAGCAGCTATAAAAACTGTTGAGCTTGATACTGTTCTTGGAGGGCGTGCAGTACAACACAGAGAACTTCAAGGCTACGAGTCTGACA
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gtacttat-ctccaagactcttttatttagtaaagactgtttttggaagagaatgcaaaggtgaaactgtgttttactaaattatggtttgatgattttagGATGAAGCTGGAACAGCAGCTGTTAAAACAGTTGAACTCGATGCAGTTCTTGGAGGCCGTGCTGTCCAACACCGGGAAATTCAGGGTCATGAATCTGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgtagtaaaataacgtttatgcttgaaattgcaacttctggtcttatcatagGATGAATCTGGAACAGCAGCTATAAAAACTGTTGAGCTTGATACTGTTCTTGGAGGGCGTGCAGTACAACACAGAGAACTTCAAGGCTACGAGTCTGACA
aaataac putative branch site (score: 2)
tcttatc putative PPT
taaaataacgtttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattactacttccttttgttcttattcagaaattacacttgtagtaaaataacgtttatgcttgaaattgcaacttctggtcttatcatagGATGAATCTGGAACAGCAGCTATAAAAACTGTTGAGCTTGATACTGTTCTTGGAGGGCGTGCAGTACAACACAGAGAACTTCAAGGCTACGAGTCTGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG