Sequence
atgc intronic sequence ATGC exonic sequence...tagttggatttttcgaagctgatactcagatgaaactatggctttgctcgattgatgcaagtggggtcttactaatatttattcctcttcctggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCATATGAGAAGCTATGGCTATGCTTTGCCAGGCACACAGGCTATGGAGGTTATGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g05970.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g71420.1 (Oryza sativa), 3'ss of exon 4
-----------------------------------------------tagttggatttttcga---agct--gatactcagat-gaaactatggctttgctcgattgatgcaagtggggtcttactaatatttattcctcttcctggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCATATGAGAAGCTATGGCTATGCTTTGCCAGGCACACAGGCTATGGAGGTTATGGAA
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gtttgtttcatctgaacatttcttgacatgtatacagaatttcttatcccctgaatcccttcagataacttagatacacaggtcaaaattcagaagacacttactttttatttgttagagaacatatatcattggttgtcatttta----cagGCAATTTTCGTTGGTCACAACCACGGCCTGGATTGGTGCTGCCCACACGAGAAACTCTGGCTATGTTTTGCCCGACACACAGGCTATGGTGGCTACGGTA
upper sequence: Vv08s0007g05970.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G34830.1 (Glycine max), 3'ss of exon 4
tagttggatttttcgaagctgatactcagatgaaactatggctttgctcgattg---atgcaagtggggtcttactaatattta-----ttcctcttcctggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCATATGAGAAGCTATGGCTATGCTTTGCCAGGCACACAGGCTATGGAGGTTATGGAA
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-------aaaatttgaattttgaatgta-atggatttgctttgatggacaattgggcatgcaagtgagattttttttcttttaatctattttcttttcacaaccgcagGCAATTTTTGTTGGACACAACCATGGATTGGACTGGTGCTGCCCTTACGAGAAACTATGGTTATGCTATGCTAGGCACACTGGTTATGGTGGCTATGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctcgattgatgcaagtggggtcttactaatatttattcctcttcctggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCATATGAGAAGCTATGGCTATGCTTTGCCAGGCACACAGGCTATGGAGGTTATGGAA
tactaat putative branch site (score: 1)
tatttattcctcttcc CT-rich tract
tcttactaatatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagttggatttttcgaagctgatactcagatgaaactatggctttgctcgattgatgcaagtggggtcttactaatatttattcctcttcctggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCATATGAGAAGCTATGGCTATGCTTTGCCAGGCACACAGGCTATGGAGGTTATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
tagttgg
- - - - - - - - - ctgatac
- - - - - - - - - - - - - - - -gaaacta
- - - - - - - - - - - - - - - - - - - tggcttt
- - - - - - - - - - - - - - - - - - - - - - - - - - -gatgcaa