Sequence
atgc intronic sequence ATGC exonic sequence...gtttattcacatttgtgtgcgtgcaaaaagttgtcagtgtgtcagtctttgaactttcaatggtgcaaatcatggttcttaatgaactgagttgttgcagATGAGGAGGATCGTATCATAGTTGCTGCACATGCAATCCATGGAAACAAATGGGCATCAATTGCAAGGCTTCTTCAAGGGAGAACAGATAATGCAATTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01540.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g63160.1 (Oryza sativa), 3'ss of exon 1
gtttattcacatt-tgtgtgcgtgcaaaaagttgtcagtgtgtcagtctttgaactttcaatggtgcaaatcatggttcttaatgaactga----gttgttgcagATGAGGAGGATCGTATCATAGTTGCTGCACATGCAATCCATGGAAACAAATGGGCATCAATTGCAAGGCTTCTTCAAGGGAGAACAGATAATGCAATTAA
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-----gtagcattatgggcatgaacattgcgcgttcagtctgttgtgtagtttcgttgcatctctgtaaaacttgcttgttaaattattattgctgtttctgcagAGGAGGAAGACCGCATTATAATGGCTGCTCATGCAATCCATGGAAACAAGTGGGCGGCTATTGCAAAGCTTTTGGTTGGGAGAACCGATAATGCAATCAA
upper sequence: Vv08s0007g01540.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G26650.1 (Glycine max), 3'ss of exon 1
gtttattcacatttgtg-tgcgtgcaaaaagttgtcagtgtgtcagtctttgaactttcaatggtgcaaat-catggttcttaatgaactgagttgttg-cagATGAGGAGGATCGTATCATAGTTGCTGCACATGCAATCCATGGAAACAAATGGGCATCAATTGCAAGGCTTCTTCAAGGGAGAACAGATAATGCAATTAA
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---gaaatatgttggtaatctacctcagcatgcatttctacattagatcttatcatgccactttcctaaagacgtaggcttaacaaaattcaattcttttcagATGAGGAGGACCGGATGATAGTTGCTGCTCATGCAATCCATGGGAACAAATGGGCAGCCATTGCCAGGCTTCTACCAGGAAGAACAGATAATGCCATTAA
upper sequence: Vv08s0007g01540.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G15810.1 (Glycine max), 3'ss of exon 1
gtttattcacatttgtgtgcgtgcaaaaagttg---tcagtgtgtcagtctttgaactttcaatggtgcaaatcatggttcttaatgaactg--agttgttgcagATGAGGAGGATCGTATCATAGTTGCTGCACATGCAATCCATGGAAACAAATGGGCATCAATTGCAAGGCTTCTTCAAGGGAGAACAGATAATGCAATTAA
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----atatg-atatatttacttagaaagttttggatttcatctattaaatcttatcatgttactttcctaaagatataggcttaacaaaatacaactcttttcagATGAGGAGGACCAGATGATAGTTGCTGCTCATGCAATCCATGGGAACAAATGGGCAGCCATTGCCAGGCTTCTACCAGGAAGAACAGATAATGCGATTAAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|161713519|gb|FC064060.1|FC064060EST: GCGCTGGTGTAATCAGCTTGACCCCTCTGTTAAGCGCAAGCCCTTTACTG ATGAGGAGGATCGTATCATAGTTGCTGCACATGCAATCCATGGAAACAAAT
genomic: GCGCTGGTGTAATCAGCTTGACCCCTCTGTTAAGCGCAAGCCCTTTACTGgtaatctcca ... gttgttgcagATGAGGAGGATCGTATCATAGTTGCTGCACATGCAATCCATGGAAACAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttgaactttcaatggtgcaaatcatggttcttaatgaactgagttgttgcagATGAGGAGGATCGTATCATAGTTGCTGCACATGCAATCCATGGAAACAAATGGGCATCAATTGCAAGGCTTCTTCAAGGGAGAACAGATAATGCAATTAA
tcttaat putative branch site (score: 3)
ttcttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttattcacatttgtgtgcgtgcaaaaagttgtcagtgtgtcagtctttgaactttcaatggtgcaaatcatggttcttaatgaactgagttgttgcagATGAGGAGGATCGTATCATAGTTGCTGCACATGCAATCCATGGAAACAAATGGGCATCAATTGCAAGGCTTCTTCAAGGGAGAACAGATAATGCAATTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- -tattcac
- - - - - - -tgtgtgc
- - - - - - - - - - - gcaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atggtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgaac