Sequence
atgc intronic sequence ATGC exonic sequence...ttgtctcattgttgagacaaaataatgttttgccaattaccctgtgtaaattttaaaacagtttttgaatagaaactgataaaagggtacttggcctcagAGATGGACCAGAGTGTGAAACGGATGTTGAAGCTGATTGAAGAGGATGGGGATTCATTTGCAAAAAAGGCTGAGATGTATTATCAGAAGAGACCTGAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g08170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G38570.1 (Glycine max), 3'ss of exon 2
ttgtctcattgttgagacaaaataatgttttgccaattaccctgtgtaaattttaaaacagtttttgaatag--------aaactgataaaagggtacttggcctcagAGATGGACCAGAGTGTGAAACGGATGTTGAAGCTGATTGAAGAGGATGGGGATTCATTTGCAAAAAAGGCTGAGATGTATTATCAGAAGAGACCTGAATT
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--------tttttggggtggagggagggggtttgcatcttgctttgtatatgtcaatccttttttgtcataatgtcgtccaagaaaatgacatgattttcattctcagAGATGGACCGGAGTGTGAAGCGAATGTTGAAGCTGATAGAAGAGGATGCAGATTCATTTGCCAAAAAAGCTGAAATGTATTATCAGAAGAGGCCAGAATT
upper sequence: Vv06s0004g08170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G40300.1 (Glycine max), 3'ss of exon 2
ttgtctcattgttgagacaaaataatgttttgccaattaccctgtgtaaat-tttaaaacagtttttgaatagaaactgataaaagggtacttggcctcagAGATGGACCAGAGTGTGAAACGGATGTTGAAGCTGATTGAAGAGGATGGGGATTCATTTGCAAAAAAGGCTGAGATGTATTATCAGAAGAGACCTGAATT
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-tttttcggggtggaggtagggggtttgcatcttactctgtatatgtcaatcttttatatcataatgccgtccaagaaaatgacttgattttcattctcagAGATGGACCGGAGTGTGAAGCGAATGTTGAAGCTGATAGAAGAGGATGCAGATTCATTTGCCAAAAAAGCTGAAATGTATTATCAGAAGAGGCCAGAATT
upper sequence: Vv06s0004g08170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G58320.3 (Arabidopsis thaliana), 3'ss of exon 1
--------------------ttgtctcattgttgagacaaaataatgttttgccaa---ttaccctgtgtaaattttaaaacagtttttgaatagaaactgataaaag---------------------ggtacttggcctcagAGATGGACCAGAGTGTGAAACGGATGTTGAAGCTGATTGAAGAGGATGGGGATTCATTTGCAAAAAAGGCTGAGATGTATTATCAGAAGAGACCTGAATT
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gtgagtccattcacattatgtcgttttcatgtaatgaaaataccttattaggcttagggtttcccaaattaggtggttagtcttttttcataaaggaaataaaaaatatgccaagtttatgttttgtgtgatgattatgatcagAGATGGACCGGAGCGTGAAACGGATGGTGAAGTTGATAGAGGAGGATGCAGATTCTTTTGCTAAGAAGGCAGAGATGTATTACCAGTCAAGACCTGAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaattttaaaacagtttttgaatagaaactgataaaagggtacttggcctcagAGATGGACCAGAGTGTGAAACGGATGTTGAAGCTGATTGAAGAGGATGGGGATTCATTTGCAAAAAAGGCTGAGATGTATTATCAGAAGAGACCTGAATT
aactgat putative branch site (score: 3)
ttttaaaacagttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtctcattgttgagacaaaataatgttttgccaattaccctgtgtaaattttaaaacagtttttgaatagaaactgataaaagggtacttggcctcagAGATGGACCAGAGTGTGAAACGGATGTTGAAGCTGATTGAAGAGGATGGGGATTCATTTGCAAAAAAGGCTGAGATGTATTATCAGAAGAGACCTGAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
-tgtctca
- - - - - - - - - aaaataa
- - - - - - - - - - - - - - -ttgccaa
- - - - - - - - - - - - - - - - - - - accctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gataaaa