Sequence
atgc intronic sequence ATGC exonic sequence...cctttccaaattggacaaaaattataataataataataataatatttatgattggttgataaatgatactaaaatggatttatacgggtaattttggcagTAAATGCGGACGAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATTATCATTTTACAGTGGAGCAAGAAGTTGGATCAGCTACTCATGCCTTCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g09930.1 (Oryza sativa), 3'ss of exon 3
-cctttccaaattg-gacaaaaattataataataataataataatatttatgattggttgataaatgatactaaaatggatttatacgggtaattttggcagTAAATGCGGACGAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATTATCATTTTACAGTGGAGCAAGAAGTTGGATCAGCTACTCATGCCTTCTT
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ttctcatggagctatgatgttgatcttgtctttgaactatatgatgttgacatt--gtctttgaactacaatgatattgatactgtcttttgtttctaccagTGAATGCAGATGAGTGCTTGATGACAAGGATGCAGGAGATGTCCTTGGATTACCACTTCACAGTGGAGCAGGAAGTGAGCTCCTCTGTCTGCGCATTCTT
upper sequence: Vv06s0061g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g42020.1 (Oryza sativa), 3'ss of exon 3
--------cctttccaaattggacaaaaattataataataataataataatatttatgattggttgataaatgatactaaaatggatttatacgggtaattttggcagTAAATGCGGACGAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATTATCATTTTACAGTGGAGCAAGAAGTTGGATCAGCTACTCATGCCTTCTT
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ctatactagtgtagcacactggccttgttttggacttttttcttttggcatggtgatgacatgtttgt---tgctgctgacggtggtgatggcgtgtga-----gcagTGAATGCAAATGAATGCCTGATGACAAGGATGCAGGAGATGTCCTTGGATTACCACTTCAAAGTAGAGCAAGAAGTGGGTTCCTCCACACACGCCTTCTT
upper sequence: Vv06s0061g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G19490.1 (Glycine max), 3'ss of exon 3
cctttccaaattggacaaaaattataataataa---taataataatatttatgattggttgataaatgatactaaaatggatttatacgggtaattttggcagTAAATGCGGACGAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATTATCATTTTACAGTGGAGCAAGAAGTTGGATCAGCTACTCATGCCTTCTT
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actcttttaatcattttcaccttttaattataaagctaatcataatatatatacattgctaataacgtatctcttttttttttttttt---tttttgtgacagTGAATTCTGACGAGTGCTTATTGACAAGAATGCAAGAGATGTCCCTGGATTACCATTTCACAGTAGAGCAAGAAGTTGGATCAGCCACTCATGCTTTCTT
upper sequence: Vv06s0061g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G05350.1 (Glycine max), 3'ss of exon 3
cctttccaaattggacaaaaattataataataataataataatatttatgattggttgataaatgatac-taaaatggatttatacgggtaattt-tggcagTAAATGCGGACGAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATTATCATTTTACAGTGGAGCAAGAAGTTGGATCAGCTACTCATGCCTTCTT
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--ttttaactctaaaatctgagcatgataaaaccattgaaaatatcaatttcaggattttttgtacttcactaatttgatcatggtgattggtttgtgacagTGAATGCGAATGAGTGCTTGTTGACAAGAATGCAAGAGATGTCACTGGATTATCATTTCACAGTAGAGCAAGAAGTTGGGTCAGCCACTCATGCTTTCTT
upper sequence: Vv06s0061g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G08990.1 (Glycine max), 3'ss of exon 3
cctttccaaattg--gacaaaaattataa--taataataataataatatttatgattggttgataaatgatactaaaatggatttatacgggtaattttg--gcagTAAATGCGGACGAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATTATCATTTTACAGTGGAGCAAGAAGTTGGATCAGCTACTCATGCCTTCTT
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-----acagattgttactaatcattttcaccttttaattatgaagctaatcatgatatctacattgctaataa-gagatatctttcttcttgtttttttgtgacagTGAATTCTGATGAGTGTTTATTGACAAGAATGCAAGAGATGTCCCTGGATTACCATTTCACAGTAGAGCAAGAAGTTGGATCAGCCACTCACGCTTTCTT
upper sequence: Vv06s0061g01230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G22740.1 (Arabidopsis thaliana), 3'ss of exon 3
cctttccaaattggacaaaaattataataataataataataatattta--tgattggttgataaa-tgatactaaaatggatttatacgggtaattttggcagTAAATGCGGACGAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATTATCATTTTACAGTGGAGCAAGAAGTTGGATCAGCTACTCATGCCTTCTT
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tctctaataaataattaagatttaattgagctttgtttgtcttattaaattgtatgttttttggactaatgttttaat---cctttgttgtatacttttgcagTAAATTCTGATGAGTGCTTATTGACGAGAATGCAAGAAATGTCATTGGATTACCATTTCACTGTTGAGCAAGAAGTGGGTTCATCAACACATGCTTTTTTMapped 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|110419935|gb|EC986193.1|EC986193EST: CCTCGTCTACAACTCGGATATTGCTCTTGTTCAAGGTCGCTGGAGATTTG TAAATGCGGACGAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATT
genomic: CCTCGTCTACAACTCGGATATTGCTCTTGTTCAAGGTCGCTGGAGATTTGgtaatcaccc ... attttggcagTAAATGCGGACGAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgattggttgataaatgatactaaaatggatttatacgggtaattttggcagTAAATGCGGACGAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATTATCATTTTACAGTGGAGCAAGAAGTTGGATCAGCTACTCATGCCTTCTT
tactaaa putative branch site (score: 1)
ataaatgatactaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctttccaaattggacaaaaattataataataataataataatatttatgattggttgataaatgatactaaaatggatttatacgggtaattttggcagTAAATGCGGACGAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATTATCATTTTACAGTGGAGCAAGAAGTTGGATCAGCTACTCATGCCTTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
cctttcc
- - - - - - - acaaaaa
- - - - - - - - - - - - -aataataa
- - - - - - - - - - - - - - - - - - - - - - - - tgattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actaaaa