Sequence
atgc intronic sequence ATGC exonic sequence...ttagctcagtctatgttctggttcatttctttgcttttcagaaacttctattgaatttttgagttaaatggtactgattccactggttttatcgttgcagATTGAGAAAACAGTTTTCGTGGTGTTCTTCTCAGGGGAGCAGGCAAAAACAAAGATACTGAAAATTTGTGAAGCATTTGGTGCAAATTGCTATCCTGTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G04970.1 (Glycine max), 3'ss of exon 6
--------------------------------------------------------------ttagctcagtctat-gttctggttcatttctttgcttttcag---aaacttctattga---atttttgagtta---aatggtactgattccactggttttatcgttgcagATTGAGAAAACAGTTTTCGTGGTGTTCTTCTCAGGGGAGCAGGCAAAAACAAAGATACTGAAAATTTGTGAAGCATTTGGTGCAAATTGCTATCCTGTGC
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gttttcttccttattacttctaagaatattgacaattgtttttttttccttttttcccttttcaatctgcatttatcattgtgagctatcatgttcccagttggtttatattcccattgatgtattctttgtctgcacaatgactcagactccggtgattttct--tttcagATTGAAAAAACAGTGTTCGTTGTGTTTTTCTCTGGGGAACAGGCAAGAACCAAGATTCTGAAAATTTGTGAGGCATTTGGTGCAAATTGTTATCCTGTTC
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G40430.1 (Glycine max), 3'ss of exon 6
--------------------------------------------------------------------ttagctcagtctat-gttctggttcatttctttgcttttcag---aaacttctattga---atttttgagtta---aatggtactgattccactggttttatcgttgcagATTGAGAAAACAGTTTTCGTGGTGTTCTTCTCAGGGGAGCAGGCAAAAACAAAGATACTGAAAATTTGTGAAGCATTTGGTGCAAATTGCTATCCTGTGC
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gttttcttccttcttattacttctaagaatattgataattgggatctttttttccttttttccattttcaatctgcatttatcattttgagctatcatgttccctgttggtttatattcccattgatgtattctttatctgcacaatgactcagaccccagtgatttccttttt-cagATTGAAAAAACAGTGTTCGTTGTGTTTTTCTCTGGGGAACAAGCAAGAACCAAGATTCTGAAAATTTGTGAGGCATTTGGTGCAAATTGTTATCCTGTTC
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G15730.1 (Glycine max), 3'ss of exon 6
----------------------------------------------------------------ttagctcagtctatgttctggttcatttctttgcttttcagaaacttctattgaatttttgagttaaatggtactgattccactggttttatcgttgcagATTGAGAAAACAGTTTTCGTGGTGTTCTTCTCAGGGGAGCAGGCAAAAACAAAGATACTGAAAATTTGTGAAGCATTTGGTGCAAATTGCTATCCTGTGC
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gttttcttccttcttatcaatttaaagaatgctgataatttggctgtagcgttgttaatctgtatttaatttgttattactttaaccaatcccatgcccaatttgtatattttcctaataatttattctctggtctcctgatgacagattcctgatcttttcagGTTGAGAAAATTGTGTTTGTTGTGTTTTTCTCTGGGGAGCAAGCAAGAACAAAGATCCTGAAAATTTGTGATGCATTTGGTGCAAATTGTTACCCTGTTC
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G07740.1 (Glycine max), 3'ss of exon 6
-----------------------------------------------------------------ttagctcagtctatgttctggttcatttctttgcttttcagaaacttctattgaatttttgagttaaatggtactgattccactggttttatcgttgcagATTGAGAAAACAGTTTTCGTGGTGTTCTTCTCAGGGGAGCAGGCAAAAACAAAGATACTGAAAATTTGTGAAGCATTTGGTGCAAATTGCTATCCTGTGC
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gttttattcctttcttatcaatttaaagaatattgataatttggctgtagctctgttaatctgtatttaatttgttattactttaaccaatcccgtgcccagtttgtttacttccctaataatttatcctctgttctcctgatgacagattcctgatcttttcagGTTGAGAAAATTGTGTTTGTTGTGTTTTTCTCTGGGGAGCAAGCAAGAACCAAGATTCTGAAAATTTGTGATGCATTTGGTGCAAATTGTTACCCTGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctattgaatttttgagttaaatggtactgattccactggttttatcgttgcagATTGAGAAAACAGTTTTCGTGGTGTTCTTCTCAGGGGAGCAGGCAAAAACAAAGATACTGAAAATTTGTGAAGCATTTGGTGCAAATTGCTATCCTGTGC
tactgat putative branch site (score: 2)
ttttatc putative PPT
aatttttgagttaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagctcagtctatgttctggttcatttctttgcttttcagaaacttctattgaatttttgagttaaatggtactgattccactggttttatcgttgcagATTGAGAAAACAGTTTTCGTGGTGTTCTTCTCAGGGGAGCAGGCAAAAACAAAGATACTGAAAATTTGTGAAGCATTTGGTGCAAATTGCTATCCTGTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - -ctggttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccactg