Sequence
atgc intronic sequence ATGC exonic sequence...ccccattcagtttaatctggatattacttcaaagtatccaattcaagagatagtgtgtatatatcataatccatgacatttctatttgattgatttgcagACGAGCAACCCAGACAAGGAAAGGAGGCATGGAAAATGCCCACTCACTCCAGAAGAAGTTGGTCTAATGCTGAGAGCACTGGGATATGGCAGTGATGTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G02110.1 (Glycine max), 3'ss of exon 7
ccccattcagtttaatctggatattacttcaaagtat-ccaattcaagagatagtgtgtatatatcataatccatgacatttctatttgat--tgatttgcagACGAGCAACCCAGACAAGGAAAGGAGGCATGGAAAATGCCCACTCACTCCAGAAGAAGTTGGTCTAATGCTGAGAGCACTGGGATATGGCAGTGATGTTC
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---caattattttgtagagaatgttttgctgaattatgtttacatatgtgaaaactgatttaccgattggtgaataataaatatgaggaatatcaatatgcagAAAAGCAATCCTGATAGGGCAAGGAGGCAGGGAAGATGCCCATTAACCCCAGAAGAAGTTGGGCTCATGCTAAGAGCATTGGGATATGGTTCTGACATTC
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G02010.1 (Glycine max), 3'ss of exon 8
ccccattcagtttaatctggatattacttcaaagtatcca-attcaagagatagtgtgtatatatcataatccatgacatttctatttgat--tgatttgcagACGAGCAACCCAGACAAGGAAAGGAGGCATGGAAAATGCCCACTCACTCCAGAAGAAGTTGGTCTAATGCTGAGAGCACTGGGATATGGCAGTGATGTTC
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---caattattttgtagagaatgttttgctgaactatgtgtacatatgtgaaaactgatttacggattggtgaataataaatatgaggaatatcaatatgcagAGAAGCAATCCTGATAGGGCAAGGAGGCAGGGGAGATGCCCATTAACCCCCGAAGAAGTTGGTCTCATGCTAAGAGCATTGGGATATGGTTCTGACATTC
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G76270.1 (Arabidopsis thaliana), 3'ss of exon 7
ccccattcagtttaatctggatattacttcaaag----tatccaattcaagagatagtgtgtatatatcataatccatgacatttctatttgattgatttgcagACGAGCAACCCAGACAAGGAAAGGAGGCATGGAAAATGCCCACTCACTCCAGAAGAAGTTGGTCTAATGCTGAGAGCACTGGGATATGGCAGTGATGTTC
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----gtaatgcctattctgtataatgtttcagaaattacatgcgattcattgtactctatattaacaaggta-ccgatgactaattt-tgcaattttattgcagATTAACAACCCAGAGAAACAGAGGCGACAAGGAAGATGTCCACTCACTCCAGAAGAAGTCGGACTGATGCTTAGAGCTTTGGGATATGGCAGTGATGTTC
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G20550.1 (Arabidopsis thaliana), 3'ss of exon 7
ccccattcagtttaatctggatattacttcaaagtatccaattcaagagatagtgtgtatatatcataatccatgacatttctatttgattgatttgcagACGAGCAACCCAGACAAGGAAAGGAGGCATGGAAAATGCCCACTCACTCCAGAAGAAGTTGGTCTAATGCTGAGAGCACTGGGATATGGCAGTGATGTTC
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-----------------------gtatgtatacaaatcttacttgtgcaaagttcttcttattttcttgttg--gatttaacgaatt--ttgcattgcagGTAAATAACCCTGAAAAGCAAAGGAGACAAGGAAGATGTCCACTTACACCAGAAGAAGTTGGATTAATGCTTAGAGCTTTGGGATATGGAAGTGATGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agagatagtgtgtatatatcataatccatgacatttctatttgattgatttgcagACGAGCAACCCAGACAAGGAAAGGAGGCATGGAAAATGCCCACTCACTCCAGAAGAAGTTGGTCTAATGCTGAGAGCACTGGGATATGGCAGTGATGTTC
gattgat putative branch site (score: 4)
tgtatatatcataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccccattcagtttaatctggatattacttcaaagtatccaattcaagagatagtgtgtatatatcataatccatgacatttctatttgattgatttgcagACGAGCAACCCAGACAAGGAAAGGAGGCATGGAAAATGCCCACTCACTCCAGAAGAAGTTGGTCTAATGCTGAGAGCACTGGGATATGGCAGTGATGTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- ccattca
- - - - - - - - - - - - - - - - -gtatcca
- - - - - - - - - - - - - - - - - - - - - -caagaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgac