Sequence
atgc intronic sequence ATGC exonic sequence...attccaagattaagattcataaggaaggttcatagcatgattatgaaagaaaccaccttcttccgtaagatctaaccgatttttcatataattttgacagTGGGACATCCTTTCAAATGGAGGACTAGTTCAAGAGATGGCACACATAGCTAATGGCCGGGATCCAGGCAACTGTGTCTCTCTACTTCGAGTGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0116g00680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA01G45070.1 (Glycine max), 3'ss of exon 8
attccaagattaagattcataaggaaggttcatagcatgattatgaaagaaaccaccttcttccgtaagatctaaccgatttttcatataattttgacagTGGGACATCCTTTCAAATGGAGGACTAGTTCAAGAGATGGCACACATAGCTAATGGCCGGGATCCAGGCAACTGTGTCTCTCTACTTCGAGTGAAT
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--------gtatctatctatctgtctg-tctata--ataattataca------tatattcatccttgaagctgatacaatatatccaattgaattctcagTGGGACATTCTCTCCAACGGGGGTCTAGTTCAAGAATTGGCACATATAGCAAATGGTCGTGATCCCGGCAACTGTGTCTCTTTACTTCGAGTCAAT
upper sequence: Vv10s0116g00680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G00570.1 (Glycine max), 3'ss of exon 8
attccaagattaagattcataaggaaggttcatagcatgattatgaaagaaaccaccttcttccgtaagatctaaccgat--ttttcatataattttgacagTGGGACATCCTTTCAAATGGAGGACTAGTTCAAGAGATGGCACACATAGCTAATGGCCGGGATCCAGGCAACTGTGTCTCTCTACTTCGAGTGAAT
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--------gtatctatctctatctattattaataac-tgcttg---------ctatattcatccatgaagctgatacaataatattcaattgaatt-atcagTGGGACATTCTATCCAACGGGGGTCTAGTTCAAGAATTAGCACATATAGCAAATGGTCGTGATCCCGGCAACTGTGTCTCTTTACTTCGAGTCAAT
upper sequence: Vv10s0116g00680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ10492 (Selaginella moellendorffii), 3'ss of exon 9
attccaagattaagattcataaggaaggttcatagcatgattatgaaagaaaccaccttcttccgtaagatctaaccgatttttcatataattttgacagTGGGACATCCTTTCAAATGGAGGACTAGTTCAAGAGATGGCACACATAGCTAATGGCCGGGATCCAGGCAACTGTGTCTCTCTACTTCGAGTGAAT
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------------------gtaacagagcttcgt---ttgatcc--atcaaaatcgagtttttgtat----------cggttttcttggt--ttttttcagTGGGACATTCTCTCCAACGGTGGAATGGTGCAAGAGATGGCTCACATCGCCAAAGGACAGGATCCAGGCAACAGTGTCTCTCTCCTCCGTGTCAAC
upper sequence: Vv10s0116g00680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ19972 (Selaginella moellendorffii), 3'ss of exon 9
attccaagattaagattcataaggaaggttcatagcatgattatgaaagaaaccaccttcttccgtaagatctaaccgatttttcatataattttgacagTGGGACATCCTTTCAAATGGAGGACTAGTTCAAGAGATGGCACACATAGCTAATGGCCGGGATCCAGGCAACTGTGTCTCTCTACTTCGAGTGAAT
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------------------gtaacagagcttcgt---ttgatcc--atcaaaatcgagtttttgtatcgg-----------ttttcttg-gctttttgcagTGGGACATTCTCTCCAACGGTGGAATGGTGCAAGAGATGGCTCACATCGCCAAAGGACAGGATCCAGGCAACAGTGTCTCTCTTCTCCGTGTCAACMapped 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|156737209|gb|EV241323.1|EV241323EST: CACCGAAACGAGTATTTGATTTTCTTCGTGCTGAGAACTCCCGAAGTGAG TGGGACATCCTTTTCAAATGAAGGACTAGTTCAAGAAATGGCACACCTAAC
genomic: CACCGAAACGAGTATTTGATTTTCTTCGTGCTGAGAACTCCCGAAGTGAGgtatatgaat ... attttgacagTGGGACATCCTTT-CAAATGGAGGACTAGTTCAAGAGATGGCACACATAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagaaaccaccttcttccgtaagatctaaccgatttttcatataattttgacagTGGGACATCCTTTCAAATGGAGGACTAGTTCAAGAGATGGCACACATAGCTAATGGCCGGGATCCAGGCAACTGTGTCTCTCTACTTCGAGTGAAT
atctaac putative branch site (score: 2)
atttttcatataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attccaagattaagattcataaggaaggttcatagcatgattatgaaagaaaccaccttcttccgtaagatctaaccgatttttcatataattttgacagTGGGACATCCTTTCAAATGGAGGACTAGTTCAAGAGATGGCACACATAGCTAATGGCCGGGATCCAGGCAACTGTGTCTCTCTACTTCGAGTGAAT
- -ccaagat
- - - - - - - - - ataagga
- - - - - - - - - - - - - - - - - gcatgat
- - - - - - - - - - - - - - - - - - - - - - -aaagaaa