Sequence
atgc intronic sequence ATGC exonic sequence...ttctagcatcattcctcatgaacagaaaagaaagacacttcactaatgaatacttgaagataaagctgtattatctactttttgtttctaatttatgcagGCTTTTAATGGTAAGAAGTGGGAGAAATTCAATAGTGAGAAAGTTGCTTCCTTGGCATATGCTAGAATCCAGGGAAAGGCTGCCCTAGTCACACATTTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g02670.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA15G23420.1 (Glycine max), 3'ss of exon 11
-----ttctagcatcattcctcatgaacagaaaagaaagacacttcactaatgaatacttgaagataaagctgtattatctactttttgtttctaatttatgcagGCTTTTAATGGTAAGAAGTGGGAGAAATTCAATAGTGAGAAAGTTGCTTCCTTGGCATATGCTAGAATCCAGGGAAAGGCTGCCCTAGTCACACATTTCC
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tatcatcttggcat--ttatttaagaaagtgtaactataaaagcttaatgacatcttccccttaattaaacggtgtattccgcaatgtgt--ctgattt-tgcagACATTCAATGGGAAGAAATGGGAGAAATTTAATAGTGAAAAAGTTGCTTCTTTGGCATATGCTAGAATTCAAGGAAAGTCTGCCCTCGTGAGCCATTTTC
upper sequence: Vv10s0003g02670.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA09G11630.1 (Glycine max), 3'ss of exon 9
ttctagcatcattcctcatgaacagaaaagaaagacacttcactaatgaatacttgaagataaagctgtattatctacttt----ttgtttctaatttatgcagGCTTTTAATGGTAAGAAGTGGGAGAAATTCAATAGTGAGAAAGTTGCTTCCTTGGCATATGCTAGAATCCAGGGAAAGGCTGCCCTAGTCACACATTTCC
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tcttggcat--ttatttaagaaagtgtaagtagtaaagcttaatgatatcttccccttaatcaa-tagtgaaaattaatttagcattgtgtctgattt-tgcagACATTCAATGGGAAGAAATGGGAGAAATTTAATAGTGAAAAAGTTGCATCTTTGGCATATGCTCGAATTCAAGGAAAATCTGCCCTTGTGAGCCACTTCC
upper sequence: Vv10s0003g02670.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ28199 (Selaginella moellendorffii), 3'ss of exon 12
ttctagcatcattcctcatgaacagaaaagaaagacacttcactaatgaatacttgaagataaagctgtatt-atctactttttgtttctaatttatgcagGCTTTTAATGGTAAGAAGTGGGAGAAATTCAATAGTGAGAAAGTTGCTTCCTTGGCATATGCTAGAATCCAGGGAAAGGCTGCCCTAGTCACACATTTCC
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---------------------------------------------------gtttgacaccgttgttttcttcgtgcgcattctcattctcgatcttacagACCTTCAATGGAAAGAAGTGGGAGAAGTTCAACAGCGAGAAGGTTGCTTCTCTGGCTTACGCTCGAATACAAGGCAAGGTTGCCCTCGTCGCACATTTCC
upper sequence: Vv10s0003g02670.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ29693 (Selaginella moellendorffii), 3'ss of exon 10
ttctagcatcattcctcatgaacagaaaagaaagacacttcactaatgaatacttgaagataaagctgtatt-atctactttttgtttctaatttatgcagGCTTTTAATGGTAAGAAGTGGGAGAAATTCAATAGTGAGAAAGTTGCTTCCTTGGCATATGCTAGAATCCAGGGAAAGGCTGCCCTAGTCACACATTTCC
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---------------------------------------------------gtttgacaccgttgttttcttcgtgcgcattctcattctcgatcttacagACCTTCAATGGAAAGAAGTGGGAGAAATTCAACAGCGAGAAGGTTGCTTCTCTGGCTTACGCTCGAATACAAGGCAAGGTTGCCCTCGTCGCACATTTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgaatacttgaagataaagctgtattatctactttttgtttctaatttatgcagGCTTTTAATGGTAAGAAGTGGGAGAAATTCAATAGTGAGAAAGTTGCTTCCTTGGCATATGCTAGAATCCAGGGAAAGGCTGCCCTAGTCACACATTTCC
ttctaat putative branch site (score: 2)
tattatctactttttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctagcatcattcctcatgaacagaaaagaaagacacttcactaatgaatacttgaagataaagctgtattatctactttttgtttctaatttatgcagGCTTTTAATGGTAAGAAGTGGGAGAAATTCAATAGTGAGAAAGTTGCTTCCTTGGCATATGCTAGAATCCAGGGAAAGGCTGCCCTAGTCACACATTTCC
- - - - tcattcc
- - - - - - - - catgaac
- - - - - - - - - - - - - aaagaaa
- - - - - - - - - - - - - - - - - -cacttca
- - - - - - - - - - - - - - - - - - - - - - aatgaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aagataa