Sequence
atgc intronic sequence ATGC exonic sequence...atacaactaataccatggaattttcatgtgtagccaatactagttcctttttgattaaagttgttactttcgatgtgatccctctctttcaatatttcagTCTGAATTGGCAACATCAGCTTTGCAAGAATCCTCGTTCTAACCCTGATATCAAAACACTCTTCACTGATCATGCATGCACTCCTACTAATGGAGCTCGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g02410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ36405 (Selaginella moellendorffii), 3'ss of exon 8
atacaactaataccatggaattttcatgtgtagccaatactagttcctttttgattaaagttgttactttcgatgtgatccctctctttcaatatttcagTCTGAATTGGCAACATCAGCTTTGCAAGAATCCTCGTTCTAACCCTGATATCAAAACACTCTTCACTGATCATGCATGCACTCCTACTAATGGAGCTCGT
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-----------------gtgcgtccctgcttttccag--ctacttctgtgctgatagaaga----------aatacatttctttttttcttttttcccagCCTCAATTGGCAACATCAGCTTTGCAAGAATCCTAGGCCCAACCCAGATATCAAAACTCTGTTTGTAGATCATACCTGTAGCGCGCCGAATGGAGCCCGC
upper sequence: Vv16s0039g02410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ32018 (Selaginella moellendorffii), 3'ss of exon 4
atacaactaataccatggaattttcatgtgtagccaatactagttcctttttgattaaagttgttactttcgatgtgatccctctctttcaatatttcagTCTGAATTGGCAACATCAGCTTTGCAAGAATCCTCGTTCTAACCCTGATATCAAAACACTCTTCACTGATCATGCATGCACTCCTACTAATGGAGCTCGT
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-----------------gtgcgtacctgcttttccag--ctacttctgtgctgatagaagaaatgcatttc-------tttttttctttttttgtc-cagCCTCAATTGGCAACATCAGCTTTGCAAGAATCCTAGGCCCAACCCAGATATCAAAACTCTGTTTGTAGATCATACCTGTGGCGCGCCGAATGGAGCCCGC
upper sequence: Vv16s0039g02410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ37833 (Selaginella moellendorffii), 3'ss of exon 4
atacaactaataccatggaattttcatgtgtagccaatactagttcctttttgattaaagttgttactttcgatgtgatccctctctttcaatatttcagTCTGAATTGGCAACATCAGCTTTGCAAGAATCCTCGTTCTAACCCTGATATCAAAACACTCTTCACTGATCATGCATGCACTCCTACTAATGGAGCTCGT
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-----------------gtgcgtacctgcttttccag--ctacttctgtgctgatagaaga----------aatgcatttctttgtttatttttttccagCCTCAATTGGCAACATCAGCTTTGCAAGAATCCTAGGCCCAACCCAGATATCAAAACTCTGTTTGTAGATCATACCTGTGGCGCGCCGAATGGAGCCCGC
upper sequence: Vv16s0039g02410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ35798 (Selaginella moellendorffii), 3'ss of exon 4
atacaactaataccatggaattttcatgtgtagccaatactagttcctttttgattaaagttgttactttcgatgtgatccctctctttcaatatttcagTCTGAATTGGCAACATCAGCTTTGCAAGAATCCTCGTTCTAACCCTGATATCAAAACACTCTTCACTGATCATGCATGCACTCCTACTAATGGAGCTCGT
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-----------------gtgcgtccctgcttttccag--ctacttctgtgctgatagaagaaatacatttcgtt----tttttcttttt-----tcccagCCTCAATTGGCAACATCAGCTTTGCAAGAATCCTAGGCCCAACCCAGATATCAAAACTCTGTTTGTAGATCATACCTGTGGCGCGCCGAATGGAGCCCGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctttttgattaaagttgttactttcgatgtgatccctctctttcaatatttcagTCTGAATTGGCAACATCAGCTTTGCAAGAATCCTCGTTCTAACCCTGATATCAAAACACTCTTCACTGATCATGCATGCACTCCTACTAATGGAGCTCGT
ttttgat putative branch site (score: 4)
tccctctctttcaat putative PPT
tttcaatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atacaactaataccatggaattttcatgtgtagccaatactagttcctttttgattaaagttgttactttcgatgtgatccctctctttcaatatttcagTCTGAATTGGCAACATCAGCTTTGCAAGAATCCTCGTTCTAACCCTGATATCAAAACACTCTTCACTGATCATGCATGCACTCCTACTAATGGAGCTCGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- -caactaa
- - - - - - ccatgga
- - - - - - - - - - - - catgtgt