Sequence
atgc intronic sequence ATGC exonic sequencegtaaggatttaatttctattgcttcagttgtattcaatttagtataggcatgccaatttcttttgctcatctgatgcagGTATATGCGCCCTGAAACAGCTCAAGGAATATTTGTAAATTTTAAGGACTTGTACTATTATAATGGCAGCAAGCTTCCCTTTGCTGCAGCTCAAATCGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os04g32650.1 (Oryza sativa), 3'ss of exon 2
-----gtaaggatttaatttctattgcttcagttgtattcaatttagtataggcatgccaatttcttttgctcatctgatgcagGTATATGCGCCCTGAAACAGCTCAAGGAATATTTGTAAATTTTAAGGACTTGTACTATTATAATGGCAGCAAGCTTCCCTTTGCTGCAGCTCAAATCGGT
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gtgaggtcaagaacagctcaatatttttgtactt-catttattctgctttaaacttatgtgcttcctcggttttt-------agGTATATGAGGCCAGAGACAGCACAAGGTATCTTTGTAAACTTCAAAGACTTGTATTACTACAACGGCAACAAGCTACCCTTTGCTGCAGCACAGATTGGT
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G041797_T01 (Zea mays), 3'ss of exon 2
gtaaggatttaatttctattgcttcagttgtattcaatttagtataggcatgccaa--------tttcttttgctcatctgatgcagGTATATGCGCCCTGAAACAGCTCAAGGAATATTTGTAAATTTTAAGGACTTGTACTATTATAATGGCAGCAAGCTTCCCTTTGCTGCAGCTCAAATCGGT
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gtaagaatatgtccattctgtctgcaattatgttcctttt-gtggtgatttgctaaaaaaaggtccaattttgtgtggcggaaatagGTATATGCGACCAGAGACAGCACAGGGTATTTTTGTAAATTTCAAGGATCTATACTATTACAATGGCCAAAAGCTCCCCTTTGCAGCTGCTCAAATTGGG
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G171688_T01 (Zea mays), 3'ss of exon 2
gtaaggatttaatttctatt---gcttcagttgtattcaatttagtataggcatgccaatttcttttgctcatctga---tgcagGTATATGCGCCCTGAAACAGCTCAAGGAATATTTGTAAATTTTAAGGACTTGTACTATTATAATGGCAGCAAGCTTCCCTTTGCTGCAGCTCAAATCGGT
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gtaagacaataacggctgaataaatttcagtatatttccactatgttcatccggcttaagtgtatctgcttccttggttttgcagGTATATGAGGCCAGAGACAGCTCAGGGTATATTTGTGAACTTCAAAGACTTGTATTACTACAATGGCAATAAGCTGCCATTCGCTGCAGCCCAAATTGGT
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G29880.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaggattta----atttctattgcttc--agttgtattcaatttagtataggcatgccaatttcttttgctcatctgatgcagGTATATGCGCCCTGAAACAGCTCAAGGAATATTTGTAAATTTTAAGGACTTGTACTATTATAATGGCAGCAAGCTTCCCTTTGCTGCAGCTCAAATCGGT
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gtgagtatttttcatgttataatcatttctgagccactttctttcctgagtttgt-tatcaaattactcctcttttgtgtttcagTTACATGCGTCCTGAAACTGCTCAAGGTATTTTTGTCAACTTTAAGGACTTGTACTATTACAATGGGAAGAAACTTCCTTTTGCCGCGGCTCAAATTGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagttgtattcaatttagtataggcatgccaatttcttttgctcatctgatgcagGTATATGCGCCCTGAAACAGCTCAAGGAATATTTGTAAATTTTAAGGACTTGTACTATTATAATGGCAGCAAGCTTCCCTTTGCTGCAGCTCAAATCGGT
atctgat putative branch site (score: 4)
tttcttttgctcatct CT-rich tract
tattcaatttagtata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggatttaatttctattgcttcagttgtattcaatttagtataggcatgccaatttcttttgctcatctgatgcagGTATATGCGCCCTGAAACAGCTCAAGGAATATTTGTAAATTTTAAGGACTTGTACTATTATAATGGCAGCAAGCTTCCCTTTGCTGCAGCTCAAATCGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA