Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcatctgatctagGCAATTATCCTAATCAATCAGGCAGCTGAATTAGAAATTGAAGCATATCCTCTGCTGGATGAACTTACATCAAAGATCAGTACCTTAAACTTGGAACGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0018g00570.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os06g44150.1 (Oryza sativa), 3'ss of exon 1
------------------------------------------------------------gtaagtcatctgatctagGCAATTATC-CTAATCAATCAGGCAGCTGAATTAGAAATTGAAGCATATCCTCTGCTGGATGAACTTACATCAAAGATCAGTACCTTAAACTTGGAACGTG---------------------
| ||| ||| | || || | | ||||||||||||||| ||||||||||||||||| || | ||||| || ||||| || |||||||| | || ||||||||||
ttgcttactcaatgttgtatatgtaaaaatatgctggtttctattagagcagagttgcacttggagcatatgagtaaaatctttttctcccgttgttcagGCAGCTGAATTGGAAATTGAAGCATATCCCTTGTTAGATGAGCTGACATCCAAAATCAGTACACTGAATTTGGAACGTGTACGGCGATTAAAAAGTAGGC
upper sequence: Vv09s0018g00570.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G108477_T01 (Zea mays), 3'ss of exon 1
--------------------------------------------------------------gtaagtcatctgatctagGCAATTATCCTAATCAATCAGGCAGCTGAATTAGAAATTGAAGCATATCCTCTGCTGGATGAACTTACATCAAAGATCAGTACCTTAAACTTGGAACGTG---------------------
| | | || | | || | | || |||||| || ||||| || |||||||||||||| | ||||||||||| ||||| || |||||||| | || ||||||||||
gcatgccttgtatataatgatgctgattgccctttgatactaataaaaattataaaatcagtacatatgtagtaatgtgtgtttttctgtttctct-tcagGCTGCGGAATTGGAGATTGAAGCATATCCATTACTGGATGAACTGACATCCAAAATCAGTACTCTCAATTTGGAACGTGCCCGGCGATTAAAAAGTAGAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaagtcatctgatctagGCAATTATCCTAATCAATCAGGCAGCTGAATTAGAAATTGAAGCATATCCTCTGCTGGATGAACTTACATCAAAGATCAGTACCTTAAACTTGGAACGTG
atctgat putative branch site (score: 4)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcatctgatctagGCAATTATCCTAATCAATCAGGCAGCTGAATTAGAAATTGAAGCATATCCTCTGCTGGATGAACTTACATCAAAGATCAGTACCTTAAACTTGGAACGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA