Sequence
atgc intronic sequence ATGC exonic sequence...tttaagtttaataacctcattttgctgcacttatacccaacttaaaccttggattttggttttaatactctatccaatctcatcaaacttttcatgacagGTTGATTTAACCGGTGGCTACTACGACGCGGGTGACAATGTGAAGTTCAACTTTCCCATGGCCTTCGCCACCACCATGCTGTCATGGGGCACCCTAGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0089g00210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G12290.1 (Glycine max), 3'ss of exon 1
tttaagtttaataacctcattttgctgcacttatacccaacttaaaccttggattttggttttaatac-tctatccaatctcat---caaacttttcatgacagGTTGATTTAACCGGTGGCTACTACGACGCGGGTGACAATGTGAAGTTCAACTTTCCCATGGCCTTCGCCACCACCATGCTGTCATGGGGCACCCTAGAAT
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---agaaaagagaaggaataaatataaaactaacaaactaac-aacttttcgataaaaaagaaaatgcatcagttacattacatagccaaactttgtatggcagGTGGATTTAAGTGGAGGGTACTATGACGCAGGAGACAATGTGAAATTCAACTTTCCAATGGCCTACACCACTACCATGCTGTCATGGGCCACAATTGAAT
upper sequence: Vv18s0089g00210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G48140.1 (Glycine max), 3'ss of exon 1
tttaagtttaataacctcattttgctgcacttat-acccaacttaaacct--tggattttggttttaatactctatccaatctcatcaaacttttcatgacagGTTGATTTAACCGGTGGCTACTACGACGCGGGTGACAATGTGAAGTTCAACTTTCCCATGGCCTTCGCCACCACCATGCTGTCATGGGGCACCCTAGAAT
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--aaaattctaaaactttttataaaagaaatcatcacttacattccatccaattgaacaaggaagtg-tcttacatacaacatatcgaaactttgtatggcagGTGGATTTAAGTGGAGGGTACTATGATGCAGGAGACAATGTGAAATTCAACTTTCCAATGGCCTACACCACCAGCATGCTGTCATGGGCCACAATTGAAT
upper sequence: Vv18s0089g00210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G22880.1 (Arabidopsis thaliana), 3'ss of exon 1
tttaagtttaataacctcattttgctgcacttatacccaacttaaaccttggattttggttttaatactctatccaatctcatcaaacttttcatgacagGTTGATTTAACCGGTGGCTACTACGACGCGGGTGACAATGTGAAGTTCAACTTTCCCATGGCCTTCGCCACCACCATGCTGTCATGGGGCACCCTAGAAT
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-------gtaagaccctaaaactg-tatacccatagtcaagtagta----aaagcatagta-----aatccatctgaat--aacacggtatgagttgcagGTGGACTTGACCGGAGGCTACTATGATGCTGGGGACAATGTGAAGTTCAATTTCCCGATGGCGTTCACCACAACCATGCTTTCCTGGAGCTCTTTGGAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accttggattttggttttaatactctatccaatctcatcaaacttttcatgacagGTTGATTTAACCGGTGGCTACTACGACGCGGGTGACAATGTGAAGTTCAACTTTCCCATGGCCTTCGCCACCACCATGCTGTCATGGGGCACCCTAGAAT
ttttaat putative branch site (score: 3)
cttttcat putative PPT
attttggttttaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaagtttaataacctcattttgctgcacttatacccaacttaaaccttggattttggttttaatactctatccaatctcatcaaacttttcatgacagGTTGATTTAACCGGTGGCTACTACGACGCGGGTGACAATGTGAAGTTCAACTTTCCCATGGCCTTCGCCACCACCATGCTGTCATGGGGCACCCTAGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - -aataacc
- - - - - - - - - - - -gctgcac
- - - - - - - - - - - - - - - - - acccaac
- - - - - - - - - - - - - - - - - - - - - - - ccttgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaaact