Sequence
atgc intronic sequence ATGC exonic sequencegtgaaattttagtgaatctgtaacgttggaattacagttcatattagtttttgatgtacattaaatattctggtttgtgctgttatgtaatccttcatttgttcctaatatgctccagttattctctttggtattcagGTGGCATCTCATGTTCTAATGGGCCTGACTAAGACTACAGTTGTGCTGCCAACCATGCTGTCTCCTCTTGGAAAGGCTTGTGCAAGGATGGATCTTACTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G06140.1 (Glycine max), 3'ss of exon 7
--gtgaaattttagtgaatctgtaacgttggaattacagttcatattagtt----tttgatgtacatt--aaatattctggtttgtgctgttatg-taatccttcatttgttcctaatat----gctcc--------agttattctctttggtattcagGTGGCATCTCATGTTCTAATGGGCCTGACTAAGACTACAGTTGTGCTGCCAACCATGCTGTCTCCTCTTGGAAAGGCTTGTGCAAGGATGGATCTTACTG
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gttttagtttttgttttagctttaaatgttgaacttcaatttacttttgctgtacttttattttcattccaaatgtattcaactttgtttttaaggtttaccttctcattctcgtaaaatcgctgttcaccatgttgagttgcccccctttttttacagGTAACTTCTCATGTGTTAATGGGCTTAACTAAAAACACAGCAGTACTACCAACCATGCTTTCTCCTCTTGGAAAGGCTTGTGCAAGGATGGATCTCACTG
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G16420.1 (Glycine max), 3'ss of exon 7
gtgaaattttagtg--aatctgtaacgttggaattacagttcatattag----tttttgatgtacatt-------aaatattctggtttgtgctgttatgtaatccttca-tttgttcctaatatgctccagttattct----------ctttggtattcagGTGGCATCTCATGTTCTAATGGGCCTGACTAAGACTAC------AGTTGTGCTGCCAACCATGCTGTCTCCTCTTGGAAAGGCTTGTGCAAGGATGGATCTTACTG
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gtttggtttttgtttttgctttcaatgttgacctt-caatttacatttgctgttcttttatctccattccattccaactgtgttcaatttcattttcctggtttccttctctttgtctaaaatctttgttcatcattttgaatttgctccctctttttacagGTAGCATCTCTTGTGTTAATGGGCCTAACTAAAAACACCGCAGTGGCAGTGCTACCAACCATGCTTTCTCCTCTTGGAAAGGCTTGTGCTAGGATGGATC------
upper sequence: Vv02s0012g01140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G46570.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgaaattttagtgaatctgtaacgttggaattacagttcatattagtttttgatgtacattaaatattctggtttgtgctgttatgtaatccttcatttgttcctaatatgctccagttattctctttggtattcagGTGGCATCTCATGTTCTAATGGGCCTGACTAAGACTACAGTTGTGCTGCCAACCATGCTGTCTCCTCTTGGAAAGGCTTGTGCAAGGATGGATCTTACTG
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------------------------------------gtttaaaagaatccctcctgaa-accgaccatatca---tgaatt-tcatatccaaatttgtttatcctggatttgat------------tttgttgcttagGTTGCTTCTCATGTCTTAATGGGCTTACCAAAGAACACAGTAATATTACCAACTATGCTTTCTCCTCTTGGAAAGGCCTGTGCAAAGATGGACCTTGCGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgtaatccttcatttgttcctaatatgctccagttattctctttggtattcagGTGGCATCTCATGTTCTAATGGGCCTGACTAAGACTACAGTTGTGCTGCCAACCATGCTGTCTCCTCTTGGAAAGGCTTGTGCAAGGATGGATCTTACTG
tcctaat putative branch site (score: 2)
ttattctcttt putative PPT
taatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaattttagtgaatctgtaacgttggaattacagttcatattagtttttgatgtacattaaatattctggtttgtgctgttatgtaatccttcatttgttcctaatatgctccagttattctctttggtattcagGTGGCATCTCATGTTCTAATGGGCCTGACTAAGACTACAGTTGTGCTGCCAACCATGCTGTCTCCTCTTGGAAAGGCTTGTGCAAGGATGGATCTTACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA