Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttaaaaaacatcgctactgcagatgtcgataaaatgttgtaattttccttgttattgtattattaatcctccaattttacagAGGGTATTCTTGGTGACACTCTTAGCAAGTTCAGCATCTGGGGTCTCTACATTACCTTTGTGCTTGCAGTTGGCCGTTTTATCAGACTGCAGTGCTCTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g00760.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: LOC_Os01g29230.1 (Oryza sativa), 3'ss of exon 8
-gtaagtttaaaaaacatcgctactgcagatgtcgataaaatgttgtaattttccttgtta--------ttgtat-----tattaatcctccaattttacagAGGGTATTCTTGGTGACACTCTTAGCAAGTTCAGCATCTGGGGTCTCTACATTACCTTTGTGCTTGCAGTTGGCCGTTTTATCAGACTGCAGTGCTCTGA
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cttatattttatgataaaagcaa-tgtttat-tctattagctgttgcaacttccctgctaacaagtactttatatatatatatatatttatttgcttttcagAGGGTATTATTGGTGAAACACTGAGCAAATTCAGCATTTGGAGTTTGTACATTACCTTTGTGTTAGCTGTTGCAAGATTTATTAGACTGCAATGCTCAGA
upper sequence: Vv07s0104g00760.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA02G16920.1 (Glycine max), 3'ss of exon 2
gtaagtttaaaa-aacatcgctactgca-----gatgtcgataaaatgttg-taattttccttgttattgtattattaatcctccaattttacagAGGGTATTCTTGGTGACACTCTTAGCAAGTTCAGCATCTGGGGTCTCTACATTACCTTTGTGCTTGCAGTTGGCCGTTTTATCAGACTGCAGTGCTCTGA
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gtaagttggtcatggcattatttatgtgtccatgattcattttatttcctgataataatgccttgtacaatatttctaatattgtaacactacagAGGGCATTCTTGGCGACACACTCAGCAAGTTCAGCATATGGGGGCTTTACATAACCTTTGTTCTAGCTGTTGGACGTTTTATCAGACTCCAATGCGCTGA
upper sequence: Vv07s0104g00760.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA10G02870.1 (Glycine max), 3'ss of exon 2
gtaagtttaaaa-aacatcgctactgcagat-----gtcgataaaatgtt---gtaattttccttgttattgtattattaatcctccaattttacagAGGGTATTCTTGGTGACACTCTTAGCAAGTTCAGCATCTGGGGTCTCTACATTACCTTTGTGCTTGCAGTTGGCCGTTTTATCAGACTGCAGTGCTCTGA
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gtaagttgatcttggcattatttatgtgtgtccgtggttcattttatttcctgataataatgccttgtacaatatttttaatattgtaacactacagagGGAATTCTTGGCGACACACTCAGCAAGTTCAGCATATGGGGGCTTTACATAACCTTTGTTCTCGCTGTTGGAC------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gataaaatgttgtaattttccttgttattgtattattaatcctccaattttacagAGGGTATTCTTGGTGACACTCTTAGCAAGTTCAGCATCTGGGGTCTCTACATTACCTTTGTGCTTGCAGTTGGCCGTTTTATCAGACTGCAGTGCTCTGA
tattaat putative branch site (score: 2)
tcctcca CT-rich tract
taattttccttgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttaaaaaacatcgctactgcagatgtcgataaaatgttgtaattttccttgttattgtattattaatcctccaattttacagAGGGTATTCTTGGTGACACTCTTAGCAAGTTCAGCATCTGGGGTCTCTACATTACCTTTGTGCTTGCAGTTGGCCGTTTTATCAGACTGCAGTGCTCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG