Sequence
atgc intronic sequence ATGC exonic sequencegtactaatataatccattttctgtatttccaactttctttaaattatttccaagattaattcactgtcagtttttcagATGAAGTCGCTATCCACCTTCCAGCATGATGCAGATTGTATGGCTCTTTTGATGGATGGAAGTGCAGCATTAGGCCTTGATTTGAGCTTTGTAACACATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g72310.1 (Oryza sativa), 3'ss of exon 5
------------------------------gtactaa--tataatccattttc----tgtatttccaactttctttaaattatttccaagattaattcactgtcagttttt---cagATGAAGTCGCTATCCACCTTCCAGCATGATGCAGATTGTATGGCTCTTTTGATGGATGGAAGTGCAGCATTAGGCCTTGATTTGAGCTTTGTAACACATG
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gtacgttttacaatttattcatcctgttccacactgccctctgttccctctttaaaatgaactgcctatttttggggaaactatgctaatgtggattttgccacaattataacgcagAGAAGTTCACTGACGAAGTTCAAAGATGATCCAGCATGCATGGCCTTAGTCATGGATGGAACTGCAGCACTGGGCCTTGATTTGAGTTTTGTCTCTTATG
upper sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G28970.2 (Glycine max), 3'ss of exon 5
-----gtactaatataatccatt-----ttctgtatttccaacttt--ctttaaattatttccaa-gattaattcac-tgtcagtttttcagATGAAGTCGCTATCCACCTTCCAGCATGATGCAGATTGTATGGCTCTTTTGATGGATGGAAGTGCAGCATTAGGCCTTGATTTGAGCTTTGTAACACATG
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gtataatgctcaaattttctattactgtttctgaaaattaaaatttacttttggtttctgaccgttggttaatttgcctttccccttttcagAAGAAGTCATTGGCCATGTTCCAGCATGATTCAAATTGTATGGCACTTCTGATGGATGGAAGTGCTGCATTGGGTCTTGATTTGAGTTTTGTTACGCATG
upper sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G21600.1 (Glycine max), 3'ss of exon 5
-----------gtactaatataatccattttctgtatttccaactttctttaaattatttccaa--gattaattcac-tgtcagtttttcagATGAAGTCGCTATCCACCTTCCAGCATGATGCAGATTGTATGGCTCTTTTGATGGATGGAAGTGCAGCATTAGGCCTTGATTTGAGCTTTGTAACACATG
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gtataatgctggaattttcttttactgtttcttaaaattaaaatttacttttggtttctgaccgttggttaatttgccttttccttttccagAAGAAGTCATTAGCCATGTTCCAGCATGATTCAAATTGTATGGCACTTCTGATGGATGGAAGTGCTGCATTGGGTCTTGACTTGAGTTTTGTTACGCATG
upper sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G54460.1 (Arabidopsis thaliana), 3'ss of exon 5
gtactaatataatccattttctgtatttccaactttctttaaattatttccaagattaa-----ttcactgtcagtttttcagATGAAGTCGCTATCCACCTTCCAGCATGATGCAGATTGTATGGCTCTTTTGATGGATGGAAGTGCAGCATTAGGCCTTGATTTGAGCTTTGTAACACATG
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gtacttgtctgttgatttgtatttctttctcacat-cttgcaatcctttataagtcaaacaactttcgatttcaacttttcagATGAAAGCTCTGGCAATGTTCCAGAACGATGCTGATTGCATGGCACTTTTGATGGATGGAAGTGGGGCCCTTGGTCTTGATTTGAGTTTTGTAACACATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttccaactttctttaaattatttccaagattaattcactgtcagtttttcagATGAAGTCGCTATCCACCTTCCAGCATGATGCAGATTGTATGGCTCTTTTGATGGATGGAAGTGCAGCATTAGGCCTTGATTTGAGCTTTGTAACACATG
gattaat putative branch site (score: 3)
tttttc putative PPT
tttctttaaattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactaatataatccattttctgtatttccaactttctttaaattatttccaagattaattcactgtcagtttttcagATGAAGTCGCTATCCACCTTCCAGCATGATGCAGATTGTATGGCTCTTTTGATGGATGGAAGTGCAGCATTAGGCCTTGATTTGAGCTTTGTAACACATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT