Sequence
atgc intronic sequence ATGC exonic sequence...attcttaaaggatgtttcacttgaatatggattgatgctactggacataaattttctgatcaaaagttttttctctcacaacatttttctgatgtttcagGCTCTTGATACTTTCAACACTGCAGTTGTGTCCCCCATATATTATGTCATGTTCACATCACTTACAATCCTTGCTAGTGTGATAATGTTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g03650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g43790.2 (Oryza sativa), 3'ss of exon 6
attcttaaaggatgtttcacttgaatatggattgatgctactggac-ataaattttctgatcaaaagttttttctctcacaacatttttctgatgtttcagGCTCTTGATACTTTCAACACTGCAGTTGTGTCCCCCATATATTATGTCATGTTCACATCACTTACAATCCTTGCTAGTGTGATAATGTTCAAG
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-ttctttcgtcatgcagagtattatggtagaaaggttttattgtattagcagcattcacatacttacagtgtaacagaataactgtactttttctcgccagGCACTTGATACATTTAATACTGCAATTGTATCTCCAATCTATTATGTAATGTTCACAACACTAACAATACTTGCAAGCGTCATAATGTTCAAG
upper sequence: Vv06s0009g03650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G120175_T03 (Zea mays), 3'ss of exon 6
---attcttaaaggatgtttcacttgaatatggattgatgcta--ctggacataaattttctgatcaaaagttttttctctcacaacatttttctgatgtttcagGCTCTTGATACTTTCAACACTGCAGTTGTGTCCCCCATATATTATGTCATGTTCACATCACTTACAATCCTTGCTAGTGTGATAATGTTCAAG
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acaacgcactgaag-tgtgttactagagttaccacaaatattaagctactggttcctgttctgctttatggagtaagtagtggt----ttttttttttgctgtagGCACTTGACACGTTCAACACGGCAATTGTATCTCCAATATATTATGTAATGTTCACAACTCTTACAATACTTGCCAGCGTCATAATGTTCAAG
upper sequence: Vv06s0009g03650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G44980.2 (Glycine max), 3'ss of exon 5
attcttaaaggatgtttcacttga-atatggattgatgctactggacataaattttctgatcaaaagtt------ttttctctcacaacatttttctga---tgtttcagGCTCTTGATACTTTCAACACTGCAGTTGTGTCCCCCATATATTATGTCATGTTCACATCACTTACAATCCTTGCTAGTGTGATAATGTTCAAG
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---------agattttctgtgtattatatacaaagttctta-tatatatgaaattttggatcaattactaattactcttcactgacatgattgtattgtaattatttcagGCTCTTGACACCTTCAACACAGCAATTGTATCTCCTATATACTATGTCATGTTCACAACACTTACAATACTAGCCAGTGTAATAATGTTTAAG
upper sequence: Vv06s0009g03650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G03790.1 (Glycine max), 3'ss of exon 6
attcttaaaggat----gtttcacttgaatatggattg--atgctactggacataaattttctgatcaaaagttttttctctcacaacatttttctgatgtttcagGCTCTTGATACTTTCAACACTGCAGTTGTGTCCCCCATATATTATGTCATGTTCACATCACTTACAATCCTTGCTAGTGTGATAATGTTCAAG
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--ttctagagaattcagattttctctgtgcattatatacaaagttcttatatatgaaattttggatcaa----ttattcttcactgacatgattgcaatatttcagGCTCTTGACACCTTCAACACAGCAATTGTATCTCCTATATACTATGTCATGTTCACAACACTTACAATACTAGCCAGTGTAATAATGTTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cataaattttctgatcaaaagttttttctctcacaacatttttctgatgtttcagGCTCTTGATACTTTCAACACTGCAGTTGTGTCCCCCATATATTATGTCATGTTCACATCACTTACAATCCTTGCTAGTGTGATAATGTTCAAG
ttctgat putative branch site (score: 3)
tttttctg CT-rich tract
atcaaaagtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attcttaaaggatgtttcacttgaatatggattgatgctactggacataaattttctgatcaaaagttttttctctcacaacatttttctgatgtttcagGCTCTTGATACTTTCAACACTGCAGTTGTGTCCCCCATATATTATGTCATGTTCACATCACTTACAATCCTTGCTAGTGTGATAATGTTCAAG
- - -taaagga
- - - - - - - - -cacttga
- - - - - - - - - - - - - -tggattg
- - - - - - - - - - - - - - - - - atgctac
- - - - - - - - - - - - - - - - - - - - - - acataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - atcaaaa