Sequence
atgc intronic sequence ATGC exonic sequence...ttgggtaataatagtctaacaagttgaaaattctgctcttttttttttctttttctctttctctggttaagatagttaatggtgctcatttctcatacagGTAAAAGAAGGTTAAAAGATTTATTGCTTAAAAGTGATAATCGCACTTGTGCTGATTGTGGTGCTCCAGATCCCAAATGGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g49070.1 (Oryza sativa), 3'ss of exon 2
ttgggtaataatagtctaacaagttgaaaattctgctcttttttttttctttttctctttctctggttaagatagttaatggtgctcatttctcata---cagGTAAA---AGAAGGTTAAAAGATTTATTGCTTAAAAGTGATAATCGCACTTGTGCTGATTGTGGTGCTCCAGATCCCAAATGGGC
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-agtttattcagtgccctaaatgatgccaatgatgtttatgttcttcttgttttccctaacgtctac--aagtttttagctatttttttttactatatggcagGCAAAGCAAGAAAATTGAAGGATCTAATGTTAAAAAGTGACAACCGGATATGTGCTGATTGTGGTGCACCTGATCCCAAATGGGC
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G13700.1 (Glycine max), 3'ss of exon 2
ttgggtaataatagtctaacaagttgaaaattctgctcttttttttttctttttctctttctctggttaagatagttaatggtgctcatttctcatacagGTAAAAGAAGGTTAAAAGATTTATTGCTTAAAAGTGATAATCGCACTTGTGCTGATTGTGGTGCTCCAGATCCCAAATGGGC
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atgttctttagaatgcctatgaagtgtaactgggggatattgaagaattaatttcatttgtttttctttagaagttgagtgattggaaggtcttttacagGTAGAAGAAAATTGAAAGATTTATTGCTTCAGAGTGATAATCGTCTTTGTGCTGATTGTAATGCTCCAGATCCTAAATGGGC
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G02830.1 (Glycine max), 3'ss of exon 2
-ttgggtaataat--agtctaacaag----ttgaaaattctgctcttttttttttctttttctctttctctggttaagatagttaatggtgctcatttctcatacagGTAAAAGAAGGTTAAAAGATTTATTGCTTAAAAGTGATAATCGCACTTGTGCTGATTGTGGTGCTCCAGATCCCAAATGGGC
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ttagaatgcctatgaagtgtaactggggtctggaggatattgcagaactaatttcatttgttt--ttctttag--aagttgagtaattgga---aggtcttttacagGTAGAAGAAAATTGAAAGATTTATTGCATCAGAGTGGTAATCGTCTTTGTGCTGATTGTAATGCTCCAGATCCTAAATGGGCMapped 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|161719936|gb|FC066718.1|FC066718EST: AAGCAGAGCAATGAGTGACCGTCCATATGAACTCGGGAGGCCTGCCTCAG GTAAAAGAAGATTAAAAGATTTATTGCTTAAAAGTGATAATCGCACTTGTG
genomic: AAGCAGAGCAATGAGTGACCGTCCATATGAACTCGGGAGGCCTGCCTCAGgtatgctgct ... tctcatacagGTAAAAGAAGGTTAAAAGATTTATTGCTTAAAAGTGATAATCGCACTTGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctttttctctttctctggttaagatagttaatggtgctcatttctcatacagGTAAAAGAAGGTTAAAAGATTTATTGCTTAAAAGTGATAATCGCACTTGTGCTGATTGTGGTGCTCCAGATCCCAAATGGGC
agttaat putative branch site (score: 4)
ctcatttctc putative PPT
ttaagatagttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgggtaataatagtctaacaagttgaaaattctgctcttttttttttctttttctctttctctggttaagatagttaatggtgctcatttctcatacagGTAAAAGAAGGTTAAAAGATTTATTGCTTAAAAGTGATAATCGCACTTGTGCTGATTGTGGTGCTCCAGATCCCAAATGGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - -ctaacaa
- - - - - - - - - - - - -gaaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgct