Sequence
atgc intronic sequence ATGC exonic sequence...aagaagaaggtttgaattctgaagaatcatttacttatgtttgtattgagaaaggcacctgatatgtttactatttctttttgtttttgtttgtttgaagCTAAACCAACCTTACCCACAAATTTTGAAGAGGATACATGGGCAAAGCTTAAGTCAGCTATTAGTGCTATATTCTTGAAGCAACCTGATCCCTGTGACTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G27240.1 (Glycine max), 3'ss of exon 1
---aagaagaaggtttgaattctgaagaatcatttacttatgtttgtattgagaaaggcacctgatatgtttactatttctttttgtttttgtttgtttgaagCTAAACCAACCTTACCCACAAATTTTGAAGAGGATACATGGGCAAAGCTTAAGTCAGCTATTAGTGCTATATTCTTGAAGCAACCTGATCCCTGTGACTT
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ctcacttggtgggaatcttgtccaatgaatcaccctctttttaatgaattggattggatgactactacatttttt-tatacttctgttttttcttgt--gaagGTATACCAACATTGCCCCCAAATTTTGAGGAGGATACATGGGCAAAATTGAAGTCAGCTATTGGTGCTATATTCTTGAAGCAACCTGTTTCTTGTGACTT
upper sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G10030.2 (Glycine max), 3'ss of exon 1
aagaagaaggtttgaattctgaagaatcatttacttatgtttgtattgagaaaggcacctgatatg------tttactatttctttttgtttttgtttgtttgaagCTAAACCAACCTTACCCACAAATTTTGAAGAGGATACATGGGCAAAGCTTAAGTCAGCTATTAGTGCTATATTCTTGAAGCAACCTGATCCCTGTGACTT
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-ttatttagcatatatttct--agcttcattcttttttgttgaaaatccatggacaatttgacatggaagtatatataatcaatatctgtttttcttt---tgtagCTAAACCAACATTGCCCACAAATTTTGAGGAGGATACATGGGCAAAACTAAAGTCTGCCATTCGTGCTATATTTTTGAAGCAACCTAACTCTTGTGATTT
upper sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G29010.1 (Glycine max), 3'ss of exon 1
---aagaagaaggtttgaattctgaagaatcatttacttatgtttgtattgagaaaggcacctgatatgtttactatttctttttgtttttgtttgtttgaagCTAAACCAACCTTACCCACAAATTTTGAAGAGGATACATGGGCAAAGCTTAAGTCAGCTATTAGTGCTATATTCTTGAAGCAACCTGATCCCTGTGACTT
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attcacatggaagtttatataaacaatatctaatttttagcttctgaat--aggatggcttttaa-atatcttttttcatacttttctgttttccttttgtagCTAAACCAACATTGCCCACAAATTTCGAGGAGGATACATGGGCAAAACTAAAGTCTGCCATTTGTGCTATATTTTTGAAGCAACCTAACTCTTGTGACTT
upper sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 1
aagaagaaggtttgaattctgaagaatcatttacttatgttt---gtattgagaaaggcacctgatatgtttactatttctttttgtttttgtttgtttgaagCTAAACCAACCTTACCCACAAATTTTGAAGAGGATACATGGGCAAAGCTTAAGTCAGCTATTAGTGCTATATTCTTGAAGCAACCTGATCCCTGTGACTT
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---tcactgtcgggaaccttgtgcaatgaatcacccttttttaacgaattggactggattacttctacatttttttttatactttcatttttttcttgtgaagGTGTACCAACATTGCCCCCAAATTTTGAGGAGGAAACATGGGCAAAATTGAAGTCAGCTATTGGTGCTATATTTATGAAGCAACCTGTTTCCTGTGACTTMapped 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|352773043|gb|FQ470658.1|FQ470658EST: CACGCCTCCTCAGCCCGCCAAGAAGCAGCTTGTTATCAAGCTCCTCAAAG CTAAACCAACCTTACCCACAAATTTTGAAGAGGATACATGGGCAAAGCTTA
genomic: CACGCCTCCTCAGCCCGCCAAGAAGCAGCTTGTTATCAAGCTCCTCAAAGgtttttctaa ... ttgtttgaagCTAAACCAACCTTACCCACAAATTTTGAAGAGGATACATGGGCAAAGCTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgagaaaggcacctgatatgtttactatttctttttgtttttgtttgtttgaagCTAAACCAACCTTACCCACAAATTTTGAAGAGGATACATGGGCAAAGCTTAAGTCAGCTATTAGTGCTATATTCTTGAAGCAACCTGATCCCTGTGACTT
acctgat putative branch site (score: 4)
tttctttttgtttttg putative PPT
atatgtttactatttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagaagaaggtttgaattctgaagaatcatttacttatgtttgtattgagaaaggcacctgatatgtttactatttctttttgtttttgtttgtttgaagCTAAACCAACCTTACCCACAAATTTTGAAGAGGATACATGGGCAAAGCTTAAGTCAGCTATTAGTGCTATATTCTTGAAGCAACCTGATCCCTGTGACTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
-agaagaa
- - - - - - - - - - - - - -catttac
- - - - - - - - - - - - - - - - - - - - - - - -gagaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - -cacctga