Sequence
atgc intronic sequence ATGC exonic sequence...tttttttgtaaactgctgtaaatatgtagtgctttcagtgtggtcccatattgagatcgcactgtttagacttggtgctaaatctgttgccgtgctgtagGTAGCTTGGGAGCATGAACAGTTTTCAAGGCTAAGAGTTACTGCTGCCACCCTTTCTGAACTCTCTGTTGCGCCTGAACTGTTAGAAAGAACTGGCGGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0080g00880.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G18710.1 (Glycine max), 3'ss of exon 8
-----tttttttgtaaactgctgtaaatatgtagtgctttcagtgtggtcccatattgagatcgcactgtttagacttggtgctaaatctgttgccgtgctgtagGTAGCTTGGGAGCATGAACAGTTTTCAAGGCTAAGAGTTACTGCTGCCACCCTTTCTGAACTCTCTGTTGCGCCTGAACTGTTAGAAAGAACTGGCGGTC
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tcatgtcttattg-aagtatttcctgatagcaagcacatgcttcctg----cattttgtctaaatgctacctctaatagttattaaagatggtcatctgctgtagGTAGCTTGGGAGCATGAACAGTTTTCAAGGCTGAGAGTTACTGCGGCCACCCTCTCTGAACTCTCTACAGCACCTGAATTTCTAGAGAAGACTGGTGGCT
upper sequence: Vv06s0080g00880.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G09710.1 (Glycine max), 3'ss of exon 9
tttttttgtaaactgctgtaaatatgtagtgctttcagtgtggtcccatattgagatcgcactgtttagacttggtgctaaatctgttgccgtgctgtagGTAGCTTGGGAGCATGAACAGTTTTCAAGGCTAAGAGTTACTGCTGCCACCCTTTCTGAACTCTCTGTTGCGCCTGAACTGTTAGAAAGAACTGGCGGTC-------------
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--------------------------------------------------------------------aaatagttattaaagatggtcatctgctgtaggtagcttgggagcatgaacagttt-caaggctgagagttactgcggccaccctt-ctgaactctctacagCAC-TGAATTGCTAGGGAAGACTGGTGGTTTGGTTGATGGCAG
upper sequence: Vv06s0080g00880.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G44330.1 (Arabidopsis thaliana), 3'ss of exon 8
-tttttttgtaaactgctgtaaatatgtagtgctttcagtgtggtcccatattgagatcgcactgtttagacttggtgctaaatctgttgccgtgctgt--agGTAGCTTGGGAGCATGAACAGTTTTCAAGGCTAAGAGTTACTGCTGCCACCCTTTCTGAACTCTCTGTTGCGCCTGAACTGTTAGAAAGAACTGGCGGTC
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tcctatgctggggttattgagagtagtt--tgactttactatgttctctctccgtcaatttatagaccctttctaat-tgaattgtgttgctgaattatttagGTTGCTTGGGAGCATGAACAATTTTCAAGACTCAGAGTAACTGCAGCCACATTATCTGAACTTTCAACTCCACCCGAGTTACTGGAAAATGCTGGAAGTCMapped 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|161718905|gb|FC067348.1|FC067348EST: GGCTTAAAGTTGGCTTGAAGCACAAGAAAATAAATATATCTAATCCTCGA GTAGCTTGGGAGCATGAACAGTTTTCAAGGCTAAGAGTTACTGCTGCCACC
genomic: GGCTTAAAGTTGGCTTGAAGCACAAGAAAATAAATATTTCTAATCCTCGAgtaagtggat ... cgtgctgtagGTAGCTTGGGAGCATGAACAGTTTTCAAGGCTAAGAGTTACTGCTGCCACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatattgagatcgcactgtttagacttggtgctaaatctgttgccgtgctgtagGTAGCTTGGGAGCATGAACAGTTTTCAAGGCTAAGAGTTACTGCTGCCACCCTTTCTGAACTCTCTGTTGCGCCTGAACTGTTAGAAAGAACTGGCGGTC
tgctaaa putative branch site (score: 2)
taaatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttttgtaaactgctgtaaatatgtagtgctttcagtgtggtcccatattgagatcgcactgtttagacttggtgctaaatctgttgccgtgctgtagGTAGCTTGGGAGCATGAACAGTTTTCAAGGCTAAGAGTTACTGCTGCCACCCTTTCTGAACTCTCTGTTGCGCCTGAACTGTTAGAAAGAACTGGCGGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - -actgctg
- - - - - - - - - - - - - - -tgctttc
- - - - - - - - - - - - - - - - - - - - - -tcccata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgttgc