Sequence
atgc intronic sequence ATGC exonic sequence...tataatgcttgacaattttgatttgaatgtgcccctttgattggaaatttaaattcttccgtgcttctcttattaatcccaaatgctgttctccttccagCTTGCATCAGTCCTGCTGATATCAATGCTGAGGAAACTCTTAATACTCTCAAATATGCTAATCGCGCTCGTAATATCCAGAATAAGCCTGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os09g02650.1 (Oryza sativa), 3'ss of exon 7
------tataatgcttgac--aattttgatttgaatgtgcccctttgattggaaatttaaattcttccgtgcttctcttattaatcccaaatgctgttctccttccagCTTGCATCAGTCCTGCTGATATCAATGCTGAGGAAACTCTTAATACTCTCAAATATGCTAATCGCGCTCGTAATATCCAGAATAAGCCTGTT
| || || | | ||||||| | | |||| ||| | | | | || | ||| || || ||| || | ||||||| | ||| || || ||||| || |||||||||||||| ||||| || || ||| | ||||||||||| ||||||||||| |||||||||||||| ||
ataaataagaaaactcggatgtaccttgattttcactaactgttttggttgatatt----actattacatgcaactgacatggatct---atatttttctcctgc-agCCTGTATTAGTCCAGCAGATATCAATGCTGAAGAAACACTGAACACTTTGAAATATGCTAACCGCGCTCGTAACATCCAGAATAAGCCAATT
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G18540.1 (Glycine max), 3'ss of exon 3
tataatgct-tgacaattttgatttgaatgtgcccctttgattgg--aaatttaaattcttccgtgcttctcttattaatcccaaatgctgttctccttccagCTTGCATCAGTCCTGCTGATATCAATGCTGAGGAAACTCTTAATACTCTCAAATATGCTAATCGCGCTCGTAATATCCAGAATAAGCCTGTT
| | || ||| || ||| || || ||| | ||| | ||| || | ||||| || || || || | | | ||||||||||| |||||||||||||||||||||||||||||||| ||||||||||| ||||| || || ||||||||||| || |||||||||||
tgttatataatgataaatttatattttataatattttttccctaatcaaagtaaaaaatttacatgcttttca-atcaaaa--aatggttaccttttccccagCTTGCATTAGTCCTGCTGATATCAATGCTGAGGAAACTCTCAATACTCTCAAGTATGCAAACCGTGCTCGTAATATTCAAAATAAGCCTGTA
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G15750.1 (Glycine max), 3'ss of exon 7
-tataatgcttgacaattttgatttgaatgtgcccctttgattgg--aaatttaaattcttccgtgcttctcttattaatcccaaat--gctgttctccttccagCTTGCATCAGTCCTGCTGATATCAATGCTGAGGAAACTCTTAATACTCTCAAATATGCTAATCGCGCTCGTAATATCCAGAATAAGCCTGTT
||| | | | | | | | | || | ||| | || || || | ||||| || |||| |||| | | || |||||||||| |||||||||||||||||||||||||||||||| ||||||||||| ||||| || || ||||| ||||| || |||||||||||
gtattgtctatatctaatatagataatgaattatttttaacctaatcaaagtaaattttttacatgcttttc-----aatcacaaaatggttaccctttcctcagCTTGCATTAGTCCTGCTGATATCAATGCTGAGGAAACTCTCAATACTCTCAAGTATGCAAACCGTGCTCGCAATATTCAAAATAAGCCTGTG
upper sequence: Vv07s0031g00130.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G50240.1 (Arabidopsis thaliana), 3'ss of exon 7
tataatgcttgacaattttgatttgaatgtgcccctttgattggaaatttaaattcttccgtgcttctcttattaatcccaaatgctgttctccttccagCTTGCATCAGTCCTGCTGATATCAATGCTGAGGAAACTCTTAATACTCTCAAATATGCTAATCGCGCTCGTAATATCCAGAATAAGCCTGTT
| | || | | ||| ||| | | | | || | || | | | | || | |||| | ||| ||||||||||||||||||||| ||||||||||||||||||||||| || ||||| ||||| ||||| ||||| ||||||||||| || ||||||
---------gtaaacttcttagttgtatgaggtaatcccctggaaatctcttatcagttcacagattcaacttctctctgtgtttgtgttattcttgtagCTTGCATCAGTCCTGCTGACATCAATGCTGAGGAAACTCTTAACACGCTCAAGTATGCAAATCGTGCTCGGAATATCCAGAACAAACCTGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttaaattcttccgtgcttctcttattaatcccaaatgctgttctccttccagCTTGCATCAGTCCTGCTGATATCAATGCTGAGGAAACTCTTAATACTCTCAAATATGCTAATCGCGCTCGTAATATCCAGAATAAGCCTGTT
tattaat putative branch site (score: 2)
tgctgttctccttcc putative PPT
tcttattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tataatgcttgacaattttgatttgaatgtgcccctttgattggaaatttaaattcttccgtgcttctcttattaatcccaaatgctgttctccttccagCTTGCATCAGTCCTGCTGATATCAATGCTGAGGAAACTCTTAATACTCTCAAATATGCTAATCGCGCTCGTAATATCCAGAATAAGCCTGTT
- - - gcttgac
- - - - - - - - - - - - gaatgtg
- - - - - - - - - - - - - - - -ccccttt
- - - - - - - - - - - - - - - - - - - -attggaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccaaat