Sequence
atgc intronic sequence ATGC exonic sequence...tagcatgcatttttccttttggtatggttcataaagttattgatgatggcattgtgtttgtatatcctgatcaaacaattgttcagctaatgctgtgcagATAGTAAATTGGAGAACACACTTGAAATTCCCTGAAGAGGCGAAGCTTTCTGCAGAGGCTAAAGATCTCATAAGCAGACTCCTGTGCAATGTGGCACACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os05g43570.1 (Oryza sativa), 3'ss of exon 8
tagcatgcatttttcctt--ttggtatggttcataaagttattgatgatggcattgtgtttgtatatcctgatcaaacaattgttcagctaatgctgtgcagATAGTAAATTGGAGAACACACTTGAAATTCCCTGAAGAGGCGAAGCTTTCTGCAGAGGCTAAAGATCTCATAAGCAGACTCCTGTGCAATGTGGCACACA
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atgctttcagctaagcttgtttactccagtacaggaaat-actcatg-tagcttcatgagcatgtgtttcatccaattttattttctattcttcatttgcagATTGTAAACTGGAGAAGTCACTTGAAATTCCCTGAAGAGGCAAAGCTTTCTCCTGAAGCTAAGGATCTCATCAGCAAACTTCTATGTAATGTTGAGCAGA
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G049088_T02 (Zea mays), 3'ss of exon 7
-------------------tagc-atgcatttttccttttggtatggttcataaagttattgatgatggcattgtgtttgtatatcctgatcaaacaattgttcagctaatgctgtgcagATAGTAAATTGGAGAACACACTTGAAATTCCCTGAAGAGGCGAAGCTTTCTGCAGAGGCTAAAGATCTCATAAGCAGACTCCTGTGCAATGTGGCACACA
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gtatgtgttttttctatgccagttattcaagtgttgcatacttctagttcatgatattgc--aagaaaaaactttgctttcagattcttcttacaca-ttacacaactgcaatt-tgcagATAGTGAATTGGAGAAGTCATCTAAAATTCCCTGAAGAGGCCAGCCTTTCTCTAGAAGCTAAAGATCTCATTAGCAAGCTATTGTGTAATGTGGATCAGA
upper sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G375904_T01 (Zea mays), 3'ss of exon 7
tagcatgcatttttccttttggtatggttcataaagttattgatgatggcattgtgtttgta----tatcctgatcaaacaattgttcagctaatgctgtgcagATAGTAAATTGGAGAACACACTTGAAATTCCCTGAAGAGGCGAAGCTTTCTGCAGAGGCTAAAGATCTCATAAGCAGACTCCTGTGCAATGTGGCACACA
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--aagtgggctttatattctagc-tgccttgcttactt-ttagtaagaaaaatgtttctgtagctttataagatcttaacttatgtttttctttgttcatgtagATTGTGAACTGGAGAAGTCACTTGAAATTCCCTGAAGAGGCAAAGCTTCCTCCTGAAGCTAAGGCTCTCATCAGCAAGCTTTTGTGTAATGTTGAGCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggcattgtgtttgtatatcctgatcaaacaattgttcagctaatgctgtgcagATAGTAAATTGGAGAACACACTTGAAATTCCCTGAAGAGGCGAAGCTTTCTGCAGAGGCTAAAGATCTCATAAGCAGACTCCTGTGCAATGTGGCACACA
agctaat putative branch site (score: 3)
tttgtatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagcatgcatttttccttttggtatggttcataaagttattgatgatggcattgtgtttgtatatcctgatcaaacaattgttcagctaatgctgtgcagATAGTAAATTGGAGAACACACTTGAAATTCCCTGAAGAGGCGAAGCTTTCTGCAGAGGCTAAAGATCTCATAAGCAGACTCCTGTGCAATGTGGCACACA
- gcatgca
- - - - - - - ccttttg
- - - - - - - - - - - - - - -cataaag
- - - - - - - - - - - - - - - - - - - - - -tgatggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcagct