Sequence
atgc intronic sequence ATGC exonic sequence...cattacattgaaaagttgaatctctgtttaatatattcttatatctgattatctgtcctttgttttgctaataaactgctgctttatgttgtatgtgtagACAGAAAAAGTTGATCTGGAGAATACACTAGTTGATGAGAGTCAAAGACAGCTGAAAGAGCAAGGTGCTTCATCTAGATTGAGGCAAGACAAATATAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g03790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g49770.1 (Oryza sativa), 3'ss of exon 2
cattacattgaaaagttgaatctctgtttaatatattcttatatctg-----attatctgtcctttgttttgctaataaactgctgctttatgttgtatg-tgtagACAGAAAAAGTTGATCTGGAGAATACACTAGTTGATGAGAGTCAAAGACAGCTGAAAGAGCAAGGTGCTTCATCTAGATTGAGGCAAGACAAATATAGTG
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------attgtagattctgatttttctcttaagtactgttggatttgtacagaattcgtgtactgatttcctctaataaagtgttcttttttgtgccttgctgtagACAGAAAAGGTCGATTTGGAGAATACCCTTGTAGATGAGAGCCAAAGACAGTCAAAAGAGTACGGATCCACTTCTAGATCAAAGAATGAGAAGTATAGTG
upper sequence: Vv18s0001g03790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G147332_T01 (Zea mays), 3'ss of exon 2
-----cattacattgaaaagttgaatctctgtttaatatattcttatatctgattatctgtcctttgttttgctaataaactgctgctttatgttgtatgtgtagACAGAAAAAGTTGATCTGGAGAATACACTAGTTGATGAGAGTCAAAGACAGCTGAAAGAGCAAGGTGCTTCATCTAGATTGAGGCAAGACAAATATAGTG
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aagatctctatattgat--gtttactgggggacttgaacctgtaaattttatgttaaagacatcgtcatctgatgatgtattcttgtgttgccttgc---tgtagACAGAAAAGGTTGATTTGGAGAATACCCTTGTCGATGAGAGTCAAAGGCAGTCGAAAGAGTATGGATCTGCTTCTAAACCAAGACATGAGAAGTATAGTG
upper sequence: Vv18s0001g03790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G157172_T01 (Zea mays), 3'ss of exon 3
cattacattg-aaaagttgaatctc--tgtttaatatatt-cttatatctg-attatctgtcctttgttttgctaataaactgctgctttatgttgtatgtgtagACAGAAAAAGTTGATCTGGAGAATACACTAGTTGATGAGAGTCAAAGACAGCTGAAAGAGCAAGGTGCTTCATCTAGATTGAGGCAAGACAAATATAGTG
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--ctaatttgtaagatctgcatattgatgtttactgggggacttgaacctgtaaaatgttttaaatactctgatgatgtattcttgtgttgccttgc---tgaagACAGAAAAGGTTGATTTGGAGAATACCCTTGTTGATGAGAGCCAAAGGCAGTCAAAAGAGTATGGATCTGCTTCTAAACCAAGGCATGAGAAGTATAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattatctgtcctttgttttgctaataaactgctgctttatgttgtatgtgtagACAGAAAAAGTTGATCTGGAGAATACACTAGTTGATGAGAGTCAAAGACAGCTGAAAGAGCAAGGTGCTTCATCTAGATTGAGGCAAGACAAATATAGTG
tgctaat putative branch site (score: 2)
taataaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattacattgaaaagttgaatctctgtttaatatattcttatatctgattatctgtcctttgttttgctaataaactgctgctttatgttgtatgtgtagACAGAAAAAGTTGATCTGGAGAATACACTAGTTGATGAGAGTCAAAGACAGCTGAAAGAGCAAGGTGCTTCATCTAGATTGAGGCAAGACAAATATAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - -ttgaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actgctg