Sequence
atgc intronic sequence ATGC exonic sequencegtattattattattattattatttttctcccttatgtgtgtgtgttttctgattgtagtctgtcaaaaagttagttgaactatgtaacaggtgagggaggtttagctacaagtagctgtaagcaggtgcacataacaaggattccctctaataatttgttgcaatttttgctttgtttatgtagTTTCCTATAACTGCTATCCGGGAAATTAAAATTCTAAAGAAGCTACATCACGAAAATGTTCTAAAACTGAAAGAGATTGTAACGTCTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G64960.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattattattattattattatttttctcccttatgtgtgtgtgttttctgattgtagtctgtcaaaaagttagttgaactatgtaacaggtgagggaggttt-agctacaag---tagctgtaagcaggtgcacataacaaggattccctctaataatttgttgcaatttttgctttgtttatgtagTTTCCTATAACTGCTATCCGGGAAATTAAAATTCTAAAGAAGCTACATCACGAAAATGTTCTAAAACTGAAAGAGATTGTAACGTCTCCAG
|| || | ||| | |||| || ||||| | | || |||| || || | | | | || | |||| | | | ||| ||||||| ||||| ||||||||||| || |||||||| |||||||| ||||| |||||||| | | ||||||||||||| || |||||||
------------------------------------------------------------------------------------------gtaagctacatttgaactaccagtactagctttgacaagttgcaaatttttgtgagtttcgtatgacttatatttccgttttcattgtttgcatggagTTTCCGATAACCGCTATCCGGGAGATCAAAATTCTGAAGAAGCTGCATCATGAAAATGTCATCCATTTGAAAGAGATTGTTACTTCTCCAG
upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ34303 (Selaginella moellendorffii), 3'ss of exon 1
gtattattattattattattatttttctcccttatgtgtgtgtgttttctgattgtagtctgtcaaaaagttagttgaactatgtaacaggtgagggaggtttagctacaagtagctgtaagcaggtgcacataacaaggattccctc-taataatttgtt-gcaatttttgcttt--gtttatg-tagTTTCCTATAACTGCTATCCGGGAAATTAAAATTCTAAAGAAGCTACATCACGAAAATGTTCTAAAACTGAAAGAGATTGTAACGTCTCCAG
||| | | | | ||| | | | | || || | || | | | || ||||||||||||||||||||| |||| ||||| || | |||||||| || ||||| ||||| | ||| |||||||||| || || || | |
-----------------------------------------------------------------------------------------------------------------------------------gtaaaatgtttgctctcgtcttgccccgctcgctcttctgactctaggctgttgctagTTTCCTATAACTGCTATCAGGGAGATTAAGATCTTGAAGAAGCTCCAGCACGAGAATGTGATCAAATTGAAAGAGATCGTCACTTCGACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acataacaaggattccctctaataatttgttgcaatttttgctttgtttatgtagTTTCCTATAACTGCTATCCGGGAAATTAAAATTCTAAAGAAGCTACATCACGAAAATGTTCTAAAACTGAAAGAGATTGTAACGTCTCCAG
ctctaat putative branch site (score: 3)
tttttgctttgttt putative PPT
taataatttgttgcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattattattattattattatttttctcccttatgtgtgtgtgttttctgattgtagtctgtcaaaaagttagttgaactatgtaacaggtgagggaggtttagctacaagtagctgtaagcaggtgcacataacaaggattccctctaataatttgttgcaatttttgctttgtttatgtagTTTCCTATAACTGCTATCCGGGAAATTAAAATTCTAAAGAAGCTACATCACGAAAATGTTCTAAAACTGAAAGAGATTGTAACGTCTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA