Sequence
atgc intronic sequence ATGC exonic sequence...actcccatcttacaaattagacttagaccatttcttgatgttttaattttagaatcttaaggtctatttttattgaaactgatcacatctcctcttacagGGTCCCACTCCCTAATGGAGGTTCTTTAGTGATTGAACAAACTGAGGCATTAGTCTCTATTGATGTGAATGGTGGGCACGGGATGCTTGGCAATGGCACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0057g01320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G36910.1 (Glycine max), 3'ss of exon 9
actcccatcttacaaattagacttagaccatttcttgatgttttaattttagaatcttaaggtctatttttattgaaactgatcacatc--tcctcttacagGGTCCCACTCCCTAATGGAGGTTCTTTAGTGATTGAACAAACTGAGGCATTAGTCTCTATTGATGTGAATGGTGGGCACGGGATGCTTGGCAATGGCACT
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--cccgatattttgtataaaatgtcaattgatctggccttcctggacacttggtattaaaattcttaacttgataactttctttatgttgatcaatttatagGGTTCCACTTGCTAATGGAGGTTCTTTAATCATTGAACAAACTGAGGCACTAGTTTCTATTGATGTAAATGGAGGGCACGGGATGCTTGGTCATGGAAAT
upper sequence: Vv12s0057g01320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G38840.1 (Glycine max), 3'ss of exon 8
actcccatcttaca---aattagacttagacca--tttcttgatgttttaattttagaatcttaaggtc--tatttttattgaaactgatcacatctcctcttacagGGTCCCACTCCCTAATGGAGGTTCTTTAGTGATTGAACAAACTGAGGCATTAGTCTCTATTGATGTGAATGGTGGGCACGGGATGCTTGGCAATGGCACT
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cttgatattttgtataagatgtcaattgatctggccttcctggacacttagtattaaaatacttaacttaatagctttctttatgctgatca-atct------atagGGTTCCACTTGCTAATGGAGGTTCTCTAATCATTGAACAAACCGAGGCATTAGTTTCCATTGATGTAAATGGAGGACACGGGATGCTTGGTCATGGAAAT
upper sequence: Vv12s0057g01320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT2G04270.4 (Arabidopsis thaliana), 3'ss of exon 5
actcccatcttacaaattagacttagac--catttcttgatgttttaatt--ttagaatcttaaggtctatttttattgaaactgatcacatctcctcttacagGGTCCCACTCCCTAATGGAGGTTCTTTAGTGATTGAACAAACTGAGGCATTAGTCTCTATTGATGTGAATGGTGGGCACGGGATGCTTGGCAATGGCACT
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---------gtaagaag-gggctaacactgcactgtccggagttataacccaccttttccttaacatatatcttcatgtaaattg--tattttgcctcttgcagAGTTCCACTTTCCAATGGAGGTTCTTTGGTGATTGAACAAACTGAGGCGTTAGTCTCTATTGATGTGAACGGAGGACATGGAATGTTTGGTCAGGGTAATMapped 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|18459499|gb|BM437777.1|BM437777EST: TTTGATGAATTCAACATCGAAGAAGAGATCAATAATATTCTAAGTAAAAG GGTCCCGCTCCCTAATGGAGGTTCTTTAGTGATTGAACAAACTGAGGCATT
genomic: TTTGATGAATTCAACATCGAAGAAGAGATCAATAATATTCTAAGTAAAAGgtgagattag ... cctcttacagGGTCCCACTCCCTAATGGAGGTTCTTTAGTGATTGAACAAACTGAGGCATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttagaatcttaaggtctatttttattgaaactgatcacatctcctcttacagGGTCCCACTCCCTAATGGAGGTTCTTTAGTGATTGAACAAACTGAGGCATTAGTCTCTATTGATGTGAATGGTGGGCACGGGATGCTTGGCAATGGCACT
aactgat putative branch site (score: 3)
tcacatctcctctt CT-rich tract
tctatttttattgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actcccatcttacaaattagacttagaccatttcttgatgttttaattttagaatcttaaggtctatttttattgaaactgatcacatctcctcttacagGGTCCCACTCCCTAATGGAGGTTCTTTAGTGATTGAACAAACTGAGGCATTAGTCTCTATTGATGTGAATGGTGGGCACGGGATGCTTGGCAATGGCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
actccca
- - - - - -acaaatt
- - - - - - - - - - - - - -ccatttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaactga