Sequence
atgc intronic sequence ATGC exonic sequence...aaatctcaacattgacaatgcctaatactattggaaattagtcactatacgatttgtgcgagcttctataaatcctagaatttaatccataaatgtatagGGGTATGGGATGACTGAAGCTGGACCTGTACTATCGATGTGCTTAGCATTTGCAAAGGAACCATTTGAGATAAAATCAGGGGCTTGTGGGACTGTGGTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os06g44620.2 (Oryza sativa), 3'ss of exon 2
--aaatctcaacattgacaatg-cctaatactattggaaatta-gtcactatacgatttgtgcgagcttctataaatcctagaatttaatccataaatgtatagGGGTATGGGATGACTGAAGCTGGACCTGTACTATCGATGTGCTTAGCATTTGCAAAGGAACCATTTGAGATAAAATCAGGGGCTTGTGGGACTGTGGTTA
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accgtgggtgacactgacactgatgtgaaatttctgatccttaagtgactg---aatcgctgagaaattcactgcatttcgtttttttttctttttctg-acagGGGTATGGGATGACTGAGGCTGGACCTGTGCTGGCCATGTGTCTGGCCTTCGCAAAGGAGCCATTCGAGGTCAAGTCCGGCTCGTGCGGGACAGTCGTCA
upper sequence: Vv11s0052g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G07170.1 (Glycine max), 3'ss of exon 1
aaatctcaacattgacaatgcctaatactattgga-aattagtcactatacgatttgtgcgagct-tctataaatcctagaatttaatccataaatg-tatagGGGTATGGGATGACTGAAGCTGGACCTGTACTATCGATGTGCTTAGCATTTGCAAAGGAACCATTTGAGATAAAATCAGGGGCTTGTGGGACTGTGGTTA
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--ggagcagcattaggaaagaa-acctcagcaggacaattacaaagaatgaaagaagcataagaaatgtaaacattgcgacgattgtatgatacatgctgcagGGTTATGGGATGACGGAGGCAGGACCAGTGCTATCAATGTGCTTAGCGTTTGCGAAGGAGCCAATGCAGGTCAAATCAGGTGCCTGCGGGACCGTCGTAA
upper sequence: Vv11s0052g01110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ20030 (Selaginella moellendorffii), 3'ss of exon 2
aaatctcaacattgacaatgcctaatactattggaaattagtcactatacgatttgtgcgagcttctataaatcctagaatttaatccataaatgtatagGGGTATGGGATGACTGAAGCTGGACCTGTACTATCGATGTGCTTAGCATTTGCAAAGGAACCATTTGAGATAAAATCAGGGGCTTGTGGGACTGTGGTTA
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----------------------gtagagttttcgagctttg-cagcatttgcctagaatgggggtttttgattcgtggattttttttctt---cttccagGGGTATGGGATGACTGAAGCTGGGCCTGTGATCGCCATGAATCTGGCATTCGCGAAAGAAGTTTTTCCAGTCAAGCCTGGATCTTGCGGAACGATCGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatacgatttgtgcgagcttctataaatcctagaatttaatccataaatgtatagGGGTATGGGATGACTGAAGCTGGACCTGTACTATCGATGTGCTTAGCATTTGCAAAGGAACCATTTGAGATAAAATCAGGGGCTTGTGGGACTGTGGTTA
atttaat putative branch site (score: 4)
aatttaatccataaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatctcaacattgacaatgcctaatactattggaaattagtcactatacgatttgtgcgagcttctataaatcctagaatttaatccataaatgtatagGGGTATGGGATGACTGAAGCTGGACCTGTACTATCGATGTGCTTAGCATTTGCAAAGGAACCATTTGAGATAAAATCAGGGGCTTGTGGGACTGTGGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - ctcaaca
- - - - - - - -caatgcc
- - - - - - - - - - - - - - - - -gaaatta
- - - - - - - - - - - - - - - - - - - - - - - - - - tttgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatccat