Sequence
atgc intronic sequence ATGC exonic sequence...ccacacctcatggatgcataaatatgaatttgcagattctaacacgcagcacctattttttactcgctgattgataatgtgtaagccttggctgtttcagGTTAATGCTTTCAGAGAAAGGCGAGCACTTGCTTTGACATTGAATGACACAAAAACAGCCGTTAACAAACTTCATCAAATGGTGAATGTTGTAGTTGTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g02980.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G23910.1 (Glycine max), 3'ss of exon 4
ccacacctcatgg-atgcataaatatgaatttgcagattctaacacgcagcacctattttttactcgctgattg------ataatgtgtaagccttggctgtttcagGTTAATGCTTTCAGAGAAAGGCGAGCACTTGCTTTGACATTGAATGACACAAAAACAGCCGTTAACAAACTTCATCAAATGGTGAATGTTGTAGTTGTCA
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------tttatagcatgtacagaccggttttaattgatctttacatgcaactgtttatgtttgcttatgtagtatttacagcagtatcttgcatttaact-tcccagGTCAATGCCTTCAGGGAAAGGAGAGCACTTGCTTTGACATTGAATGACACCAAAACGGCAGTGAACAAACTTCATCGAATGCTCAATTTTATAGTTGCAA
upper sequence: Vv03s0038g02980.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G43050.1 (Glycine max), 3'ss of exon 2
ccacacctcatgg-atgcataaatatgaatttgcagattctaacacgcagcacctattttttactcgctga---ttgataatg--tgtaagccttggctgtttcagGTTAATGCTTTCAGAGAAAGGCGAGCACTTGCTTTGACATTGAATGACACAAAAACAGCCGTTAACAAACTTCATCAAATGGTGAATGTTGTAGTTGTCA
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------tttatagcatttacataacggttttaattgatgtttacatgcaactgtttatgtttgcttatatagtatttacaacagttccttgcatttaacttcccagGTTAATGCCTTCAGGGAAAGGAGAGCACTTGCTTTGACATTGAATGATACCAAAACGGCAGTGAACAAACTTCATCGAATGCTCAATTTTATAGTTGGAA
upper sequence: Vv03s0038g02980.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G17000.1 (Arabidopsis thaliana), 3'ss of exon 2
-ccacacctcatggatgcataaatatgaatttgcagattctaacacgcagcacctattttttactcgctgattgataatgtgtaagccttggctgtttcagGTTAATGCTTTCAGAGAAAGGCGAGCACTTGCTTTGACATTGAATGACACAAAAACAGCCGTTAACAAACTTCATCAAATGGTGAATGTTGTAGTTGTCA
|| || || | |||| ||| || |||||| | | ||| | | ||| |||||| || ||| | |||| |||||||||||||| || |||||||||| || ||| | |||||||| |||||||| || |||||||| ||||| ||| | | | || | || ||
gtactacttcttg--ttcata-----gaaaatgttgattcttatgatta-tgtatatatgtcactaaagtattgattctgcttaa------------ttagGTAAATGCTTTCAGAGAGAGAAGAGCACTTGCCTTAACACTCAATGACACCAAAACAGCAGTGAACAAACTCCATCACATGATTAGTTTTCTCACTGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcagcacctattttttactcgctgattgataatgtgtaagccttggctgtttcagGTTAATGCTTTCAGAGAAAGGCGAGCACTTGCTTTGACATTGAATGACACAAAAACAGCCGTTAACAAACTTCATCAAATGGTGAATGTTGTAGTTGTCA
gattgat putative branch site (score: 4)
ctgtttc putative PPT
tattttttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccacacctcatggatgcataaatatgaatttgcagattctaacacgcagcacctattttttactcgctgattgataatgtgtaagccttggctgtttcagGTTAATGCTTTCAGAGAAAGGCGAGCACTTGCTTTGACATTGAATGACACAAAAACAGCCGTTAACAAACTTCATCAAATGGTGAATGTTGTAGTTGTCA
- -cacctca
- - - - - -ggatgca
- - - - - - - - - -aaatatga
- - - - - - - - - - - - - - - tgcagat
- - - - - - - - - - - - - - - - - - - - -acacgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agccttg