Sequence
atgc intronic sequence ATGC exonic sequence...aagaaaataacctgttgttcattgttttttgctactggggcagtcttttaatggcttgtaagggaaccttctattcatgtctcatactttggataaacagGTGGAGTTTGATGAAAATGGAAAAGCTTTCGGTGTGACATCTGAAGGGGAAACTGCTAAATGCAAGAAGGTTGTTTGTGATCCATCATATTTACCTGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g16900.1 (Oryza sativa), 3'ss of exon 8
aagaaaataacctgttgttcattgttttttgctactggggcagtcttttaatggcttgtaagggaaccttctattcatgtctcatactttggataaacagGTGGAGTTTGATGAAAATGGAAAAGCTTTCGGTGTGACATCTGAAGGGGAAACTGCTAAATGCAAGAAGGTTGTTTGTGATCCATCATATTTACCTGATA
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--gtaaccgaagcattgctcaga------tgctactttggtactttccaactatccag--atgaatgcttataattcta---cggtcgttgg-----cagGTTGAGTTTGATGAAAATGGGAAAGCATACGGTGTCACTTCCGAGGGGGAGACTGCAAAATGCAAGAAGGTTGTCTGTGACCCTTCATACTTGCCTGACA
upper sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G30050.1 (Glycine max), 3'ss of exon 8
--aagaaaata-acctgttgttcattgttttttgctactggggcagtcttttaatggcttgtaagggaaccttctattcatgtctcatactttggataaacagGTGGAGTTTGATGAAAATGGAAAAGCTTTCGGTGTGACATCTGAAGGGGAAACTGCTAAATGCAAGAAGGTTGTTTGTGATCCATCATATTTACCTGATA
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attagaatgtatattaaatgctccttaaccaatatatgtaaaggtactctcaagtttcttcttgtata--tttctcctcacatttaatcttgtgg-tgcacagGTAGAATTTGACGACAATGGGAAAGCCATCGGTGTGACTTCAGAAGGAGAAACAGCCAAATGCAAGAAAGTTGTGTGTGATCCATCATATCTGTCTGATA
upper sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G07250.1 (Glycine max), 3'ss of exon 8
aagaaaataacctgttgttcattgttttttgctactggggcagtcttttaatggcttgtaagggaaccttctattcatgtctcat----------actttg-gataaacagGTGGAGTTTGATGAAAATGGAAAAGCTTTCGGTGTGACATCTGAAGGGGAAACTGCTAAATGCAAGAAGGTTGTTTGTGATCCATCATATTTACCTGATA
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-----------cattttttttttatatttgagagcagagggagtatatgtaaagttactcccaagtcccttcctctatatttcacttcacatttaatcttgtggtgcacagGTGGAATTTGACGAAAATGGGAAAGCCATTGGTGTGACTTCAGAAGGAGAAACAGCCAAATGCAAGAAAATTGTGTGTGATCCATCGTATCTGTCTGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttaatggcttgtaagggaaccttctattcatgtctcatactttggataaacagGTGGAGTTTGATGAAAATGGAAAAGCTTTCGGTGTGACATCTGAAGGGGAAACTGCTAAATGCAAGAAGGTTGTTTGTGATCCATCATATTTACCTGATA
ttttaat putative branch site (score: 3)
ttctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagaaaataacctgttgttcattgttttttgctactggggcagtcttttaatggcttgtaagggaaccttctattcatgtctcatactttggataaacagGTGGAGTTTGATGAAAATGGAAAAGCTTTCGGTGTGACATCTGAAGGGGAAACTGCTAAATGCAAGAAGGTTGTTTGTGATCCATCATATTTACCTGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- -aaaataa
- - - - - cctgttg
- - - - - - - - - - - - - - ttgctac
- - - - - - - - - - - - - - - - - - - ggcagtc
- - - - - - - - - - - - - - - - - - - - - - - - - -tggcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagggaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtctca