Sequence
atgc intronic sequence ATGC exonic sequence...atttcttcttaaggttcctttggcatacctaagttgatcaaaatatacctatttattattttttattcttcacttgatattttattctatcactttgcagGTGGTGAATGGTGGGACCTTTGTGCTGGGCCTCATGTTGAATATACTGGAAATATTAACAGGAAAGCTGTTGAACTTGAATCTGTTGCTGGTGCTTACTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0057g00400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g33500.1 (Oryza sativa), 3'ss of exon 3
atttcttcttaaggttcctttggcat---acctaagttgatcaaaatatacctatttattatttttt------attcttcact--tgatattttattctat-cactttgcagGTGGTGAATGGTGGGACCTTTGTGCTGGGCCTCATGTTGAATATACTGGAAATATTAACAGGAAAGCTGTTGAACTTGAATCTGTTGCTGGTGCTTACTG
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gtttgtagtgccatctcgtttgattttgagcattacattttcgtcatgcattttttttttggttgatcggtggagtctatgctcatgttggtgaattcactgtatactgtagGAGAAGAGTGGTGGGATCTCTGTGCCGGACCTCATGTCGAGTCTACTGGCAAAATCGATAGAAGAGCTGTTGAGCTTGAGTCTGTTGCTGGTGCTTACTG
upper sequence: Vv12s0057g00400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G13740.1 (Glycine max), 3'ss of exon 4
---atttcttcttaaggttcctttggcat---acctaagttgatcaaaatatacctatttattattttttattcttcacttgatattttattctatcactttgcagGTGGTGAATGGTGGGACCTTTGTGCTGGGCCTCATGTTGAATATACTGGAAATATTAACAGGAAAGCTGTTGAACTTGAATCTGTTGCTGGTGCTTACTG
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gagagagtgttgcaggtttcacactgcattgaaaataagttatt--gcttggagtgttgcatctgtttttttttctcatcttgtattccttttt----ccttaaagGTGATGAATGGTGGGACCTATGTGCTGGACCTCATGTTGAATCTACTGGAAATATCAATAAGAAAGCGGTTGAACTTGG---------------------
upper sequence: Vv12s0057g00400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G37550.1 (Glycine max), 3'ss of exon 3
---atttcttcttaaggttcctttggcatacctaagttgat-caaaatatacctatttattattttttattcttcacttgatattttattctatcactttgcagGTGGTGAATGGTGGGACCTTTGTGCTGGGCCTCATGTTGAATATACTGGAAATATTAACAGGAAAGCTGTTGAACTTGAATCTGTTGCTGGTGCTTACTG
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gagagagtgctgcaggtctcacattgcattaaaaagaagttattgcctgtggtgtctcatctgtttttttgtctcatcttgtattccttttt----ccttaaagGTGATGAGTGGTGGGACCTCTGTGCTGGACCTCATGTTGATTCTACTGGACATATCAATAAGAAAGCAGTTGAACTTGAGTCTATTGCTGGTGCATACTGMapped 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|161720644|gb|FC070254.1|FC070254EST: GGAAATTTTGGATAGCATCCAGGAAGATCCCATCACCATCTATCATATTG GTGGTGAATGGTGGGACCTTTGTGCTGGGCCTCATGTTGAATATACTGGAA
genomic: GGAAATTTTGGATAGCATCCAGGAAGATCCCATCACCATCTATCATATTGgtaaggggat ... cactttgcagGTGGTGAATGGTGGGACCTTTGTGCTGGGCCTCATGTTGAATATACTGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacctatttattattttttattcttcacttgatattttattctatcactttgcagGTGGTGAATGGTGGGACCTTTGTGCTGGGCCTCATGTTGAATATACTGGAAATATTAACAGGAAAGCTGTTGAACTTGAATCTGTTGCTGGTGCTTACTG
acttgat putative branch site (score: 5)
ttctatc putative PPT
atttattattttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttcttcttaaggttcctttggcatacctaagttgatcaaaatatacctatttattattttttattcttcacttgatattttattctatcactttgcagGTGGTGAATGGTGGGACCTTTGTGCTGGGCCTCATGTTGAATATACTGGAAATATTAACAGGAAAGCTGTTGAACTTGAATCTGTTGCTGGTGCTTACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - gcatacc
- - - - - - - - - - - - - - - - - - - caaaata