Sequence
atgc intronic sequence ATGC exonic sequence...gtttgtctgtgttgcttgttgtttgtatttattagaaagaaatcataatagtccctacatgctactgtagttattcattctgactattttattttcgtgtGATGATAAAAAATTTCGAGCAAGTGGTGACAATGGTTTTGAATACATTCCAAAATCCCCATCCTCGTGTGCGATGGGCAGCTATTAATGCCATTAGGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g00110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G19820.1 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------------------gtttgtctgtgttgctt-gttgtttgtattt---attagaaag-aaatcataatagtccct------acatgctactgtagttattcattc-----tgactatttt--attttcgt----gtGATGATAAAAAATTTCGAGCAAGTGGTGACAATGGTTTTGAATACATTCCAAAATCCCCATCCTCGTGTGCGATGGGCAGCTATTAATGCCATTAGGCAA
||| || ||| || |||||| || || ||| || |||| || || | || | | ||| ||| | || ||| ||| || | ||| | ||||||||||||||| | || ||||||||| |||||||||||| || |||| ||| |||||||| || | ||||| ||||| ||||| ||| | |
gtataatttttagtgaataacatgtcttaatgaactttttccttaattgtttcattgtttttactttcaattggatgttaaataatgattgattctgagttgatttatctttgtggttttcaatctgatagtgaatatcttgaactttgatgtagGTGATGATAAAAAATCTAGACCAAGTGGTGTCAATGGTTTTGAGCCAGTTTCAAAGTCCTCATCCTCGCGTAAGGTGGGCTGCTATAAATGCGATTGGAC--
upper sequence: Vv09s0002g00110.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ38876 (Selaginella moellendorffii), 3'ss of exon 1
gtttgtctgtgttgcttgttgtttgtatttattagaaagaaatcataatagtccctacat-gctactgtagttattcattctgactatt--ttattttcgtgtGATGATAAAAAATTTCGAGCAAGTGGTGACAATGGTTTTGAATACATTCCAAAATCCCCATCCTCGTGTGCGATGGGCAGCTATTAATGCCATTAGGCAA
| || | || | ||| | | | | | || | | ||| |||||| | || || ||||||||||||||||| |||| |||||| | ||| |||||||| | || ||| |||| ||||| || || ||||||| ||||||||||| || | |
----------------------------------gtaatatatttcctttttcctttcttcggtgctttt-caagacatactgacttatgcttggttatagGTGATGATAAAAAATTTAGAGCCGGTGGTGTCCATGATTTTGAATTCGTTTCAAGATCCACATCCCCGAGTTAGATGGGCTGCTATTAATGCGATCGGAC-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatagtccctacatgctactgtagttattcattctgactattttattttcgtgtGATGATAAAAAATTTCGAGCAAGTGGTGACAATGGTTTTGAATACATTCCAAAATCCCCATCCTCGTGTGCGATGGGCAGCTATTAATGCCATTAGGCAA
ttctgac putative branch site (score: 2)
ttttattttc putative PPT
tgactattttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtctgtgttgcttgttgtttgtatttattagaaagaaatcataatagtccctacatgctactgtagttattcattctgactattttattttcgtgtGATGATAAAAAATTTCGAGCAAGTGGTGACAATGGTTTTGAATACATTCCAAAATCCCCATCCTCGTGTGCGATGGGCAGCTATTAATGCCATTAGGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- -tgtctgt
- - - - - - tgcttgt
- - - - - - - - - - - - - - - - - -aaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -tccctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgctac