Sequence
atgc intronic sequence ATGC exonic sequence...ggagaggatcctataaggctataatgcaataaactctagttagcacttaataaacagtcttctttactaaagttcttatttaaaaatctctactttccagTCGAGAGTTCACACATCGAGTGAAGTCAGTATCAATGGCAAAATTTACTTCTCAAGAAGTCAGCTCTCTTCAACGAGGGGGAAATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os05g45840.1 (Oryza sativa), 3'ss of exon 2
-----------------------------------------------------------ggagaggatcctataa--ggctataatg-caataaactctagttagcacttaataaacagtcttctttactaaagttc--ttatttaaaaatctctactttccagTCGAGAGTTCACACATCGAGTGAAGTCAGTATCAATGGCAAAATTTACTTCTCAAGAAGTCAGCTCTCTTCAACGAGGGGGAAATGAG
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gtaagtggtgaaaatatccttctagtgtttcctctgtttcttactttaaaaatgcaattccacaactacttgtgattgactatgacaattatgaatttatgtgcagaagtaataaac--tcctgataaatgttgtctaattactgaactttaattattcttcagTCGGGAGTTCACTCATCGTGTAAAATCAATATCAATGGCTAAATTTACTTCTCAAGAAGTTTCTGCTCTTCAAGAAGGGGGAAACGAG
upper sequence: Vv11s0016g04210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g11820.1 (Oryza sativa), 3'ss of exon 3
---------------------------------------ggagaggatcctataaggctataatg-caataaactctagttag---cacttaataaacagtcttctttactaaagttcttattta-aaaatctctact--ttccagTCGAGAGTTCACACATCGAGTGAAGTCAGTATCAATGGCAAAATTTACTTCTCAAGAAGTCAGCTCTCTTCAACGAGGGGGAAATGAG
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gtaagattcttattcagttctgttttgttacacttgtaatatgtcgaacctctctagcttcactgtccctttggtcaaattagatgcattttagtga-agtcagtgatcctaattttattgatgacaaaatttgttttgcttctagCCGAGAGTTCACGCATCGAGCGAAGTCAGTTTCTATGGCTAAATTTACTGCACAGGAAGTTAGTGCCCTTCAAGAAGGAGGAAATGAG
upper sequence: Vv11s0016g04210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G136547_T01 (Zea mays), 3'ss of exon 1
---------------------------------------------ggagaggatcctataaggctataat-gcaataaactctagttagcacttaataaacagtcttctttactaaagttcttatttaaaaatctct----------actttccagTCGAGAGTTCACACATCGAGTGAAGTCAGTATCAATGGCAAAATTTACTTCTCAAGAAGTCAGCTCTCTTCAACGAGGGGGAAATGAG
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gtaagtggtgatcatattgttgtttttctctttattaaaagtgcagcaatgtttcttgtttggctattacagttgtgaactcctccctataagttatataaa--cttctgaaccagtgcctgtgcttgcccatttctgaattgtgacattttacagCCGAGAGTTCAGTCATCGTGTAAAATCAGTATCAATGGCTAAATTCACTTCCCAAGAAGTTTCGGCACTTCTAGAAGGGGGCAATGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttaataaacagtcttctttactaaagttcttatttaaaaatctctactttccagTCGAGAGTTCACACATCGAGTGAAGTCAGTATCAATGGCAAAATTTACTTCTCAAGAAGTCAGCTCTCTTCAACGAGGGGGAAATGAG
tactaaa putative branch site (score: 1)
tctctactttcc putative PPT
ttctttactaaagttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggagaggatcctataaggctataatgcaataaactctagttagcacttaataaacagtcttctttactaaagttcttatttaaaaatctctactttccagTCGAGAGTTCACACATCGAGTGAAGTCAGTATCAATGGCAAAATTTACTTCTCAAGAAGTCAGCTCTCTTCAACGAGGGGGAAATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - -aataaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaatc