Sequence
atgc intronic sequence ATGC exonic sequencegtatgcattttaactctctctttgattgtacatttttcttcatgtgtataacctcagcttctctattgttgcttttgaaatttgttttaatcagTTGATATCCTGAAGCTTCTTTTGCCGGGAGACTGGAAAGAGATTCCATACTTCAGGAGATTGGATAAATTAGTTGGAGTTCCAGTGATCAATGTTCATAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 4
gtatgcattttaactctctcttt--gattgta-----catttttcttcatg---tgtataacctcagcttctctattgttgcttttgaaatttgtttt--aatcagTTGATATCCTGAAGCTTCTTTTGCCGGGAGACTGGAAAGAGATTCCATACTTCAGGAGATTGGATAAATTAGTTGGAGTTCCAGTGATCAATGTTCATAT
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gtgttttttcttcttcttattttacgaatgtaataattaattgttttcatgacattcttaatcttcactcct-taacattttttaggttctttttcttgaaaacagTGGATATTCTGAAGCTTCTTCTACCAGATAACTGGAAAGGGATTCCATATTTCCAGAGATTGGATAAATTAGTTGGCGTCCCAGTCATAAATGTTCACAT
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G36810.1 (Glycine max), 3'ss of exon 8
--gtatgcattttaactctctctttg-attgtacatttttcttcatgtgtataacctcagcttctcta--ttgttgcttttgaaatttgtttt-----aatcagTTGATATCCTGAAGCTTCTTTTGCCGGGAGACTGGAAAGAGATTCCATACTTCAGGAGATTGGATAAATTAGTTGGAGTTCCAGTGATCAATGTTCATAT
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gtatttttcttcttattttcccaatgtattaattaattgttttcatg---acattcttaatcttcataccttaacatttttgaggttctttttcttgaaaacagTGGATATTCTGAAGCTTCTTCTACCAGACAACTGGAAAGGGATTCCGTATTTCCAGAGACTGGATAAATTAGTTGGAGTCCCAGTCATAAATGTTCACAT
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 9
gtatgcattttaactctctctttgattgtacatttttcttcatgtgtataacctcagcttctctat-tgttgcttttgaaatttgttttaatcagTTGATATCCTGAAGCTTCTTTTGCCGGGAGACTGGAAAGAGATTCCATACTTCAGGAGATTGGATAAATTAGTTGGAGTTCCAGTGATCAATGTTCATAT
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gtttactaccatgctgtcttgtgggtttaacaatt-----catctg-gtatcct--gcttattaatatgttgtttatg---tttttcttg--tagTCGATATCCTGAAGCTCCTTTTACCAGATCCCTGGAAAGAAATACCGTACTTCAAGAAATTGGATAAATTAGTTGGAGTACCAGTTATTAATGTTCATATMapped 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|110392879|gb|EC957437.1|EC957437EST: AAATAATGGGAATGTAATTAAAGGAGATGCTTATGTAATTGCAACTCCAG TTGATATCCTGAAGCTTCTTTTGCCGGGAGACTGGAAAGAGATTCCATACT
genomic: AAATAATGGGAATGTAATTAAAGGAGATGCTTATGTAATTGCAACTCCAGgtatgcattt ... ttttaatcagTTGATATCCTGAAGCTTCTTTTGCCGGGAGACTGGAAAGAGATTCCATACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatgtgtataacctcagcttctctattgttgcttttgaaatttgttttaatcagTTGATATCCTGAAGCTTCTTTTGCCGGGAGACTGGAAAGAGATTCCATACTTCAGGAGATTGGATAAATTAGTTGGAGTTCCAGTGATCAATGTTCATAT
gtataac putative branch site (score: 3)
tttgtttt putative PPT
ttttgaaatttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcattttaactctctctttgattgtacatttttcttcatgtgtataacctcagcttctctattgttgcttttgaaatttgttttaatcagTTGATATCCTGAAGCTTCTTTTGCCGGGAGACTGGAAAGAGATTCCATACTTCAGGAGATTGGATAAATTAGTTGGAGTTCCAGTGATCAATGTTCATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG