Sequence
atgc intronic sequence ATGC exonic sequence...aaagaataatctcaatgaaagaatattattcccgtgaaaccctattcttcaacttgttcattgctttatcatcggtctctcattaagacttactttccagTGCTTATGTGTTAACCTGGCTGAGCGATCAAAGTTTTCTGAAGGGGAAATTCAGACATTCATGTCTGTAGATGCTGATCGAATTGTCAACTTGTGTAATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0018g00310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G081573_T01 (Zea mays), 3'ss of exon 6
aaagaataatctcaatgaaagaatattattcccgtgaaaccctattcttcaacttgttcattgctt--tatcatc-ggtctctcattaagacttacttt---ccagTGCTTATGTGTTAACCTGGCTGAGCGATCAAAGTTTTCTGAAGGGGAAATTCAGACATTCATGTCTGTAGATGCTGATCGAATTGTCAACTTGTGTAATA
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----cattgtatta-tgtaaaaat-ttaattatgaagcatgttataactttacttgatttttacttgttattttttaaaatttggatggatctttctcaaaaacagTGCCTATGTCTCAGTCTAGCTGAGCGTTCTAGGTTTTCTGAAGGTGAGATACAAACCTTCATGTCTGTTGATGCTGATCGCACAATAAACTTGTGTAACA
upper sequence: Vv09s0018g00310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G44750.1 (Glycine max), 3'ss of exon 3
----------------------------------------------------------------------------------aaagaataatctcaatgaaagaa-tattattcccgtgaaaccctattcttcaact--tgttcattgctttatcatcggtctctcattaagacttac---tttccagTGCTTATGTGTTAACCTGGCTGAGCGATCAAAGTTTTCTGAAGGGGAAATTCAGACATTCATGTCTGTAGATGCTGATCGAATTGTCAACTTGTGTAATA
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gtatgccatttttattttattttatttgtttttgaatgctgaaatatagattttcataataataaaatgctcatactctttttatttactcccctaatgttgttactgatgcacgcatgacttttgatagcgtgactcatgatcatgctttcatactaaaatgtacacattgtttcatgtgtttgaagTGCCTACGTGTGAACTTAGCAGAGCGTTCAAAATTCACAAATGGCGAAATTCAGACATTTATGTCAGTGGATGCTGACCGTACTGTCAACTTGTGTAATA
upper sequence: Vv09s0018g00310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G07680.1 (Arabidopsis thaliana), 3'ss of exon 10
aaagaataatctcaatgaaaga-atattattcc---cgtgaaaccctattcttcaacttgttcattgctttatcatcggtctctcattaagacttacttt--ccagTGCTTATGTGTTAACCTGGCTGAGCGATCAAAGTTTTCTGAAGGGGAAATTCAGACATTCATGTCTGTAGATGCTGATCGAATTGTCAACTTGTGTAATA
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-----accttttgagtatacgatatataacttcatacatagtatcaaacgttttggttcttttggtaaagagctgtttttgttt-atgaaattatattgtatgcagTGTTTGTGGGTGAACACAGCAAACCGGTCAGGATTTTCTGAAGGCGAGATTCAAACATTTATGTCGGTAGATGCTGACCGCATTGTTAACTTGTGCAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttcaacttgttcattgctttatcatcggtctctcattaagacttactttccagTGCTTATGTGTTAACCTGGCTGAGCGATCAAAGTTTTCTGAAGGGGAAATTCAGACATTCATGTCTGTAGATGCTGATCGAATTGTCAACTTGTGTAATA
gacttac putative branch site (score: 2)
cttactttcc CT-rich tract
tttatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagaataatctcaatgaaagaatattattcccgtgaaaccctattcttcaacttgttcattgctttatcatcggtctctcattaagacttactttccagTGCTTATGTGTTAACCTGGCTGAGCGATCAAAGTTTTCTGAAGGGGAAATTCAGACATTCATGTCTGTAGATGCTGATCGAATTGTCAACTTGTGTAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
-aagaata
- - - - - - - - gaaagaa
- - - - - - - - - - - - - - - cccgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - cattgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctcat