Sequence
atgc intronic sequence ATGC exonic sequence...ttcgtgaagttacttccaaacccaccgtattcatgaactaatcacaaactttgaggtgtttcagtcttcttaaggactgacatttgtttgggaattgtagATGGGCTCATATTGCAAGTCACTTGCCTGGAAGAACAGACAATGAGATAAAGAATTACTGGAATTCGTGGATCAAAAAGAAGATAAGGAAGCCGTCGGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g00320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os08g05520.1 (Oryza sativa), 3'ss of exon 2
ttcgtgaagttacttccaaacccaccgtattcatgaactaatcacaaactttgaggtgtttcagtc-ttcttaaggactgacatttgtttgggaattgtagATGGGCTCATATTGCAAGTCACTTGCCTGGAAGAACAGACAATGAGATAAAGAATTACTGGAATTCGTGGATCAAAAAGAAGATAAGGAAGCCGTCGGCA
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-tgattaatttgaccaagatatgatggtgtgtagtatcagtatataaaccatagagagaataattaactaattataattaatgttgttgtctctctgacagGTGGGCCCACATTGCCAGCCACCTGCCTGGCCGGACCGACAACGAGATCAAGAACTACTGGAATTCATGGATCAAGAAGAAGATTCGCAAGCCGGCGGCG
upper sequence: Vv02s0025g00320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G325907_T01 (Zea mays), 3'ss of exon 2
--ttcgtgaag-ttacttccaaacccaccgtattcatgaactaatcacaaactttgaggtgtttcagtcttcttaaggactgacatttgtttgggaattgtagATGGGCTCATATTGCAAGTCACTTGCCTGGAAGAACAGACAATGAGATAAAGAATTACTGGAATTCGTGGATCAAAAAGAAGATAAGGAAGCCGTCGGCA
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tgaaaatgaaggctaaatccaaaggaatgcaacacctaggctagctagctagtt---gatgtgtacatgaccacagccatgtcccccggttctctctctgcagGTGGGCCCACATTGCCAGCCACTTGCCCGGGCGGACGGACAACGAGATCAAGAACTACTGGAACTCGTGGATCAAGAAGAAGATCCGGAAGCCGGCGATG
upper sequence: Vv02s0025g00320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G37460.1 (Glycine max), 3'ss of exon 2
ttcgtgaagttacttccaaac--ccaccgtattcatgaactaatcacaaactttgaggtgtttcagtcttct-taaggactgacatttg--tttgggaattgtagATGGGCTCATATTGCAAGTCACTTGCCTGGAAGAACAGACAATGAGATAAAGAATTACTGGAATTCGTGGATCAAAAAGAAGATAAGGAAGCCGTCGGCA
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-----caaacatctgctaaataagcatggactttaataagaacatataggtttttcttgatttgaactgtcgacttgtattgattcttgaatttgggaaatgcagATGGGCTCACATTGCAAGCCACTTGCCTGGTCGAACTGACAATGAAATAAAGAACTATTGGAACTCATGGATAAAAAAGAAGATAAGAAAGACTTCGGTG
upper sequence: Vv02s0025g00320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G43120.1 (Glycine max), 3'ss of exon 2
ttcgtgaagttacttccaaacccaccgtatt-catgaactaatcac--aaactttgaggtgtttcagtcttcttaaggactgacatt----tgtttgggaattgtagATGGGCTCATATTGCAAGTCACTTGCCTGGAAGAACAGACAATGAGATAAAGAATTACTGGAATTCGTGGATCAAAAAGAAGATAAGGAAGCCGTCGGCA
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-------tcttaattaagaagatactgtttttcattatttaaacattagaatatacatacgtactcaattaattaattatatatgttcctgtgtttgagaaatgcagATGGGCTCACATTGCAAGCCACTTACCAGGTAGAACTGACAACGAAATAAAGAACTACTGGAATTCTTGGATCAAAAAGAAAATTAGAAAGCCTTCTTCG
upper sequence: Vv02s0025g00320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G02400.1 (Glycine max), 3'ss of exon 2
ttcgtgaagttacttccaaacccaccgtattcatgaactaatcacaaactttgaggtgtttcagt--cttcttaaggactgacatttgtttgggaattgtagATGGGCTCATATTGCAAGTCACTTGCCTGGAAGAACAGACAATGAGATAAAGAATTACTGGAATTCGTGGATCAAAAAGAAGATAAGGAAGCCGTCGGCA
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attaagaagatactttttt-tttataat-ttaaacattaaaatatagatatgtacgtactcaattaattaattatatatgttcttgtgtttgggaaatgcagATGGGCTCACATTGCAAGCCACTTACCAGGTAGAACTGACAACGAAATAAAGAACTATTGGAATTCTTGGATCAAAAAGAAAATTAGAAAGCCTTCTACG
upper sequence: Vv02s0025g00320.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G02080.1 (Glycine max), 3'ss of exon 2
ttcgtgaagttacttccaaacccaccgtattcatgaactaatcacaaactttgaggtgtttcag-tcttcttaaggactgacatttg--tttgggaattgtagATGGGCTCATATTGCAAGTCACTTGCCTGGAAGAACAGACAATGAGATAAAGAATTACTGGAATTCGTGGATCAAAAAGAAGATAAGGAAGCCGTCGGCA
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tctgttaa-ttaattaagcatgcagtttagt-atatacgaa-cataggtttttcttgatttaaactgtggacttgtattaattcttgaatttgggaaatgcagATGGGCTCACATTGCAAGCCACTTGCCAGGTCGAACTGACAATGAAATAAAGAACTATTGGAACTCATGGATAAAAAAGAAAATAAGAAAGACTTCTTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaactttgaggtgtttcagtcttcttaaggactgacatttgtttgggaattgtagATGGGCTCATATTGCAAGTCACTTGCCTGGAAGAACAGACAATGAGATAAAGAATTACTGGAATTCGTGGATCAAAAAGAAGATAAGGAAGCCGTCGGCA
gactgac putative branch site (score: 2)
atttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcgtgaagttacttccaaacccaccgtattcatgaactaatcacaaactttgaggtgtttcagtcttcttaaggactgacatttgtttgggaattgtagATGGGCTCATATTGCAAGTCACTTGCCTGGAAGAACAGACAATGAGATAAAGAATTACTGGAATTCGTGGATCAAAAAGAAGATAAGGAAGCCGTCGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - tacttcc
- - - - - - - - -aaaccca
- - - - - - - - - - - - - - - -catgaac
- - - - - - - - - - - - - - - - - - - - - cacaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgacat