Sequence
atgc intronic sequence ATGC exonic sequence...agaagtttttttgagacatggtcatcatgcgtagtgaatgatattctttggcatcagtcttgttcttaaccttatttgtatttttcttttttatatccagGGATCAAGATGACTATGAGGTCGTTCGAAAAGTTGGAAGGGGAAAATACAGTGAGGTTTTTGAAGGTATAAATGTGACAAACAATGAAAGATGCGTAGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G22250.1 (Glycine max), 3'ss of exon 1
-----agaagtttttttgagacatggtcatcatgcgtagtgaatgatattctttggcatcagtcttgttcttaaccttatttgtatttttcttttttatatccagGGATCAAGATGACTATGAGGTCGTTCGAAAAGTTGGAAGGGGAAAATACAGTGAGGTTTTTGAAGGTATAAATGTGACAAACAATGAAAGATGCGTAGTC
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cttataaacattgatgtgtctcaggactgattcttgtgaggatttagaatttttcattccaattatgttatttatgaaatttctgtgtgctcttttt-----cagTGATCAAGATGATTATGAGGTTGTGCGCAAAGTGGGAAGGGGAAAGTACAGTGAGGTTTTTGAAGGCATAAATGTTAATAGCAATGAGCGTTGTATAATC
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G17790.1 (Glycine max), 3'ss of exon 1
------agaagtttttttgagacatggtcatcatgcgtagtgaatgatattctttggcatcagtcttgttcttaaccttatttgtatttttcttttttatatccagGGATCAAGATGACTATGAGGTCGTTCGAAAAGTTGGAAGGGGAAAATACAGTGAGGTTTTTGAAGGTATAAATGTGACAAACAATGAAAGATGCGTAGTC
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acttataaacattgatgtgtattaggactgattcttgtgaggatttagatttttcctt-ccaattatgttatttatgaattctccgtgtgctcttttt-----cagTGATCAAGATGATTATGAGGTTGTGCGCAAAGTGGGAAGGGGAAAGTACAGTGAGGTTTTTGAAGGCATAAATGTTAATAGCAATGAGCGTTGTGTAATC
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G05340.2 (Glycine max), 3'ss of exon 1
-------agaagtttttttgagacatggtcatcatgcgtagtgaatgatattctttggcatcagtcttgttcttaaccttatttgtatttttcttttttatatccagGGATCAAGATGACTATGAGGTCGTTCGAAAAGTTGGAAGGGGAAAATACAGTGAGGTTTTTGAAGGTATAAATGTGACAAACAATGAAAGATGCGTAGTC
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cttgtgccgagttaattgatcgaatttgttctc-tgaatcctcaat-ataacctcttatacc--cttttctttaaaatttacttagcgagtattttttt---tccagTGATCAAGATGATTATGAGGTTGTGCGAAAAGTGGGCAGGGGGAAATATAGTGAAGTTTTTGAAGGCATAAATGTCAATAGCAATGAGCGCTGTATAATC
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G39950.1 (Glycine max), 3'ss of exon 1
agaagtttttttgagacatggtcatcatgcgtagtgaatgatattctttggcatcagtcttgttcttaacct--tatttgtatttttcttttttatatccagGGATCAAGATGACTATGAGGTCGTTCGAAAAGTTGGAAGGGGAAAATACAGTGAGGTTTTTGAAGGTATAAATGTGACAAACAATGAAAGATGCGTAGTC
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tgagttcattgatcgaatttgttctc-tgaatcctcaat-ataactttgtataccatttctttttttaatttactgagcgagtgttgccttttatttttcagTGATCAAGATGATTATGAGGTTGTGCGAAAAGTGGGCAGGGGTAAATATAGTGAAGTTTTTGAAGGCATAAATGTCAATAGCAATGAGCGCTGTATAATT
upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S63_208V6.1 (Physcomitrella patens), 3'ss of exon 2
agaagtttttttgagacatggtcatcatgcgtagtgaatgatattctttggcatcagt-cttgt---tcttaaccttatttgtatttttcttttttatatccagGGATCAAGATGACTATGAGGTCGTTCGAAAAGTTGGAAGGGGAAAATACAGTGAGGTTTTTGAAGGTATAAATGTGACAAACAATGAAAGATGCGTAGTC
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--atgtctctttacagaatggccctttatagt--tgagtaactttttacaagagaactgcatgtatctgttgctgctgctctgatcatttttactggcttccagAGACCAAGACGATTACGAGGTGATACGTAAAGTAGGGCGGGGGAAATACAGTGAGGTTTTTGAAGGTGTTCACGCCGTGAACAGTGAGCGTTGCGTTATTMapped 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|71860686|gb|DT009741.1|DT009741EST: CACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGG GGATCAAGATGACTATGAGGTTGTTCGAAAAGTTGGAAGGGGAAAATACAG
genomic: CACCGCCCCAGAGATTACTGGGACTACGAGTCTCTCACCGTTCAATGGGGgtaatcacta ... ttatatccagGGATCAAGATGACTATGAGGTCGTTCGAAAAGTTGGAAGGGGAAAATACAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttggcatcagtcttgttcttaaccttatttgtatttttcttttttatatccagGGATCAAGATGACTATGAGGTCGTTCGAAAAGTTGGAAGGGGAAAATACAGTGAGGTTTTTGAAGGTATAAATGTGACAAACAATGAAAGATGCGTAGTC
tcttaac putative branch site (score: 2)
ccttatttgtattttt CT-rich tract
ttcttaaccttatttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaagtttttttgagacatggtcatcatgcgtagtgaatgatattctttggcatcagtcttgttcttaaccttatttgtatttttcttttttatatccagGGATCAAGATGACTATGAGGTCGTTCGAAAAGTTGGAAGGGGAAAATACAGTGAGGTTTTTGAAGGTATAAATGTGACAAACAATGAAAGATGCGTAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - catggtc
- - - - - - - - - - - - -catgcgt
- - - - - - - - - - - - - - - - -gtgaatg
- - - - - - - - - - - - - - - - - - - - - - - - -ggcatca