Sequence
atgc intronic sequence ATGC exonic sequencegtatggatcattaatttattatagaccaatagttcagctaatacttgcagaaaacaaacaaataatgataggcatatagcaatcctcactcttattaaccctgcctgtatagAATTTTGTTGATCTTGCTGGAAGTGAGCGTGCATCTCAGTCATTATCAGCTGGCACAAGGCTGAAAGAAGGTTGCCACATAAACCGCAGTTTATTAACCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os09g35890.1 (Oryza sativa), 3'ss of exon 8
gtatggatcattaatttattatagaccaatagttcagctaatacttgcagaaaacaaacaa-ataatgataggcatatagcaatcctcactcttattaaccctgcctgtatagAATTTTGTTGATCTTGCTGGAAGTGAGCGTGCATCTCAGTCATTATCAGCTGGCACAAGGCTGAAAGAAGGTTGCCACATAAACCGCAGTTTATTAACCC
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----------------------------gta-ttgatgaaatacctgcatcttgtaagctttgtattattttgcacatgtttttccatagaatc-tgagtttcttgtggacagAATTTTGTTGATTTAGCAGGAAGTGAGCGTGCATCTCAGACGGCATCGGCTGGTATGAGGCTAAAGGAGGGCAGCCATATTAACAGAAGCCTGCTTACTC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G015395_T01 (Zea mays), 3'ss of exon 6
gtatggatcattaatttattatagaccaatagttcagctaatacttgcagaaaacaaacaaataatgataggcatatagcaatcctcactcttattaaccctgcctgtatagAATTTTGTTGATCTTGCTGGAAGTGAGCGTGCATCTCAGTCATTATCAGCTGGCACAAGGCTGAAAGAAGGTTGCCACATAAACCGCAGTTTATTAACCC
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gtatggatctctaccatgctatattttcttatcacatctcaag--tatagtagttgttccatgtatttccgtcttattatacttttttcatttctt----ccatctgggcagAATTTTGTTGATTTAGCAGGAAGTGAGCGTGCCTCTCAGACACAATCAGCTGGTATGAGGCTTAAGGAAGGCAGCCACATTAACAGAAGCCTGCTAACTT
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G24250.1 (Glycine max), 3'ss of exon 7
gtatggatcattaattta--ttatagaccaatagttcagctaatacttgcagaaaacaaacaaataatgataggcatatagcaatcctcactcttattaaccctgcctgtatagAATTTTGTTGATCTTGCTGGAAGTGAGCGTGCATCTCAGTCATTATCAGCTGGCACAAGGCTGAAAGAAGGTTGCCACATAAACCGCAGTTTATTAACCC
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gtacgactgattcactcagattacagaaaaata-tagaagaattactct-----gttacttgaacaataattggaaaccaa-aatgatattttttttcgg--------gtacagAATTTCGTTGATCTTGCTGGGAGTGAGCGTTCATCCCAAACAAATTCAGCTGGTACGAGGTTGAAAGAGGGTTGCCACATAAATCGTAGTTTACTAACTC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G05650.1 (Glycine max), 3'ss of exon 7
gtatggatcattaatttattatagaccaatagttcagctaatacttgcagaaaacaaacaaataatgataggcatatagcaatcctcactcttattaaccctgcctgtatagAATTTTGTTGATCTTGCTGGAAGTGAGCGTGCATCTCAGTCATTATCAGCTGGCACAAGGCTGAAAGAAGGTTGCCACATAAACCGCAGTTTATTAACCC
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----gtactactgagtcact-cagatta------cagaaaa-atataaaagaattactctgttacttgaacaataattggaaaccaaaatgatattttttttccgggtacagAATTTCGTTGATCTTGCTGGGAGTGAGCGCGCATCCCAAACTAATTCAGCTGGTACGAGGTTGAAAGAGGGTTGCCACATAAATCGTAGTTTACTAACTC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G37340.1 (Glycine max), 3'ss of exon 6
gtatggatcattaattta--ttatagaccaatagttcagctaatacttgcagaaaacaaacaaataatgataggcatatagcaatcctcactcttattaaccctgcctgtatagAATTTTGTTGATCTTGCTGGAAGTGAGCGTGCATCTCAGTCATTATCAGCTGGCACAAGGCTGAAAGAAGGTTGCCACATAAACCGCAGTTTATTAACCC
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gtacgattgattccctcagtttatagggaaatattccaagaatcagcttcttgtgttaaa-gaacatctataggaattcaaataattttcttctcttt--ttctgg--gtacagAATTTTGTTGATCTTGCTGGTAGCGAGCGAGCATCCCAAACCCATTCAGCTGGCACGAGATTGAAAGAGGGTTGCCACATAAATCGTAGCTTACTAACTC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G07950.1 (Glycine max), 3'ss of exon 7
gtatggatcattaattta--ttatagaccaatagttcagctaatacttgcagaaaacaaacaaataatgataggcatatagcaatcctcactcttattaaccctgcctgtatagAATTTTGTTGATCTTGCTGGAAGTGAGCGTGCATCTCAGTCATTATCAGCTGGCACAAGGCTGAAAGAAGGTTGCCACATAAACCGCAGTTTATTAACCC
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gtatgattgattcccttagtttataggaaaatattccaagaatcagcttcttgtgttaaa-gaacatctatagcaattcaaataatttttttcttcttctttttctgggtacagAATTTTGTTGATCTTGCTGGTAGCGAGCGAGCATCCCAAACCCATTCAGCTGGCACGAGATTGAAAGAGGGTTGCCACATAAATCGTAGCTTACTAACTC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G51150.2 (Arabidopsis thaliana), 3'ss of exon 9
gtatggatcattaatttattatagaccaatagttcagctaatacttgcagaaaacaaacaaataatgataggcatatagcaatcctcactcttattaaccctgcctgtatagAATTTTGTTGATCTTGCTGGAAGTGAGCGTGCATCTCAGTCATTATCAGCTGGCACAAGGCTGAAAGAAGGTTGCCACATAAACCGCAGTTTATTAACCC
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------------------gtatatacttttaaatcttccattatgtactatcctaaaacaaaacatgaaatatattcatagattaac-----taattatcctgc------agAATTTCATTGATCTTGCTGGAAGTGAACGTGCATCTCAATCATTATCAGCTGGCACAAGGTTGAAAGAAGGTGGTCATATAAACCGAAGTTTACTAACAC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G66310.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatggatcattaatttattatagaccaatagttcagctaatacttgcagaaaacaaacaaataatg-ataggcatatagcaatcctcactcttattaaccctgcctgtatagAATTTTGTTGATCTTGCTGGAAGTGAGCGTGCATCTCAGTCATTATCAGCTGGCACAAGGCTGAAAGAAGGTTGCCACATAAACCGCAGTTTATTAACCC
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------------------------gtacatatctt---tgaacctcccatcaaataatctgctaaaatatcagttgaaggggatccattgagtaaataattgt---cgtgcagAACTTCATTGATCTTGCTGGAAGTGAACGTGCGTCTCAATCATTATCAGCCGGCACAAGGTTAAAAGAAGGTTGTCATATAAACCGAAGTTTGTTAACAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaaataatgataggcatatagcaatcctcactcttattaaccctgcctgtatagAATTTTGTTGATCTTGCTGGAAGTGAGCGTGCATCTCAGTCATTATCAGCTGGCACAAGGCTGAAAGAAGGTTGCCACATAAACCGCAGTTTATTAACCC
tattaac putative branch site (score: 1)
ccctgcct CT-rich tract
tcttattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggatcattaatttattatagaccaatagttcagctaatacttgcagaaaacaaacaaataatgataggcatatagcaatcctcactcttattaaccctgcctgtatagAATTTTGTTGATCTTGCTGGAAGTGAGCGTGCATCTCAGTCATTATCAGCTGGCACAAGGCTGAAAGAAGGTTGCCACATAAACCGCAGTTTATTAACCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG