Sequence
atgc intronic sequence ATGC exonic sequence...gggctgtatgtgacttttctagggggaaaatcattgatatcaaatatactgctgtttgtagcttccagtagttaatagtttgtcagttgccaaaatgcagTCAGGTAGATCCTATAGTGGCATCTTTCTCTGGAGGGGCAGTTGGAGTGATCTCATCCTTGATGATTGTTGAAATAAACAACGTAAAACAGCAGGAGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0013g00350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g43500.1 (Oryza sativa), 3'ss of exon 5
---------gggctgtatgtgacttttctagggggaaaatcattgatatcaaat----atact---gctgtttgtagcttccagtagttaatagttt--gtcagttgccaa--aatgcagTCAGGTAGATCCTATAGTGGCATCTTTCTCTGGAGGGGCAGTTGGAGTGATCTCATCCTTGATGATTGTTGAAATAAACAACGTAAAACAGCAGGAGAAA
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gtattacaactattccatgttctattggtgtagtgaacatctttta-accagttcttgataccagggaagttctgagataccgtgtgctgatccttttcatgatttttctatctgtacagTCAGGTAGATCCTATTGTGGCATCGTTCTCAGGTGGAGCAGTTGGAGTTATCTCCGCTCTAATGGTTGTTGAGATCAACAATGTCAAACAGCAGGAGCAT
upper sequence: Vv16s0013g00350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G00600.1 (Glycine max), 3'ss of exon 5
gggctgtatgtgacttttctagggggaaaatcattgatatcaaatatactgctgtttgtagcttccagtagttaatagtttg--tcagttgccaaaatgcagTCAGGTAGATCCTATAGTGGCATCTTTCTCTGGAGGGGCAGTTGGAGTGATCTCATCCTTGATGATTGTTGAAATAAACAACGTAAAACAGCAGGAGAAA
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-atgaatatttgattagtgttagttcactgctgctaaaatgaatctcagtgcattccatttattctttcctatcatgactcaattctgttgg-atattctagTCAGGTTGATCCCATAGTGGCATCATTCTCTGGAGGAGCAGTTGGAGTAATCTCGGCATTAATGGTGGTTGAGATAAACAATGTAAAACAGCAGGAGCAG
upper sequence: Vv16s0013g00350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G36770.2 (Glycine max), 3'ss of exon 5
gggctgtatgtgacttttctagggggaaaatcattgatatcaaatatactgc----tgtttgtagcttccagtagttaatagtttgtcagttgccaaaatgcagTCAGGTAGATCCTATAGTGGCATCTTTCTCTGGAGGGGCAGTTGGAGTGATCTCATCCTTGATGATTGTTGAAATAAACAACGTAAAACAGCAGGAGAAA
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-acagatatttgattagtgttatttcatttctgctgaaatgaatctcagtgcattgcacttattatttcctatcttaactaaattct--gttgg-gtattctagTCAGGTTGATCCCATAGTGGCATCATTCTCTGGAGGAGCAGTTGGAGTAATCTCGGCATTAATGGTGGTTGAGATAAACAATGTAAAACAGCAGGAGCAGMapped 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|87586448|gb|DY474711.1|DY474711EST: ACATCATATGAAGATTTTATCCGTAGTGTGCATCTTCCGATGCAGTTGAG TCAGGTAGATCCTATAGTGGCATCTTTCTCTGGAGGGGCAGTTGGAGTGAT
genomic: ACATCATATGAAGATTTTATCCGCAGTGTGCATCTTCCAATGCAGTTGAGgtattaccta ... caaaatgcagTCAGGTAGATCCTATAGTGGCATCTTTCTCTGGAGGGGCAGTTGGAGTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactgctgtttgtagcttccagtagttaatagtttgtcagttgccaaaatgcagTCAGGTAGATCCTATAGTGGCATCTTTCTCTGGAGGGGCAGTTGGAGTGATCTCATCCTTGATGATTGTTGAAATAAACAACGTAAAACAGCAGGAGAAA
agttaat putative branch site (score: 4)
ttaatagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggctgtatgtgacttttctagggggaaaatcattgatatcaaatatactgctgtttgtagcttccagtagttaatagtttgtcagttgccaaaatgcagTCAGGTAGATCCTATAGTGGCATCTTTCTCTGGAGGGGCAGTTGGAGTGATCTCATCCTTGATGATTGTTGAAATAAACAACGTAAAACAGCAGGAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - -gtatgtg
- - - - - - - - - - - - ggaaaat
- - - - - - - - - - - - - - - - - - - atcaaat
- - - - - - - - - - - - - - - - - - - - - - - -actgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagttgc