Sequence
atgc intronic sequence ATGC exonic sequence...cacaataactttatgcatgttttatattttatttttattttacaaatgaagtgattaacaaaaaacactgcttagctgttccattctttttttttttcagTCCTGAGTCTGTCATCAAGAGATTTGAACAAAGGGATCATGCAGTAGACAGTAGAGGAGTTGCAGAATATCTTCGAGCTCTAGTGGTCACTAATGCAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G08160.1 (Glycine max), 3'ss of exon 1
---cacaataactttatgcatgttttatattttatttttattttacaaatgaagtgattaacaaaaaacactgcttagctgttccattctttttttttttcagTCCTGAGTCTGTCATCAAGAGATTTGAACAAAGGGATCATGCAGTAGACAGTAGAGGAGTTGCAGAATATCTTCGAGCTCTAGTGGTCACTAATGCAATT
| || || | | || | | | ||| | || | || | | | | || || || | | | | |||||| | |||||||| |||||||||||| | |||||||||||||||| || || ||||||||||| ||||| ||||||||||||||||| |||||||||||||| |||
cggctaggtagacaatgacacataggtttttgaactggaagtttttgtgtcaaa-gcttgttagcatatattgatttattgattaaatgtattttttct--agTCCTGAATCTGTCATCAAGTGGTTTGAACAAAGGGATCGAGCTGTGGACAGTAGAGGGGTTGCGGAATATCTTCGAGCTCTTGTGGTCACTAATGCTATT
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G29780.1 (Glycine max), 3'ss of exon 1
-------cacaataactttatgcatgttttatattttatttttattttacaaatgaagtgattaacaaaaaacactgcttagctgttccattctttttttttttcagTCCTGAGTCTGTCATCAAGAGATTTGAACAAAGGGATCATGCAGTAGACAGTAGAGGAGTTGCAGAATATCTTCGAGCTCTAGTGGTCACTAATGCAATT
||||| | || | ||||| | | || || | || | | || || | | | ||| | || || |||||| | |||||||| |||||||||||| | |||||||||||||||| || |||||||||| ||| ||||| ||||||||||||||||| |||||||||||||| |||
ttaggtagacaatgaaactacataggtttttgacctggaagtttttgtgtcaa--agtttgttggcatatattgat--ttatttattatatgtattttttct---agTCCTGAATCTGTCATCAAGTGGTTTGAACAAAGGGATCGAGCTGTAGACAGTAAAGGGGTTGCGGAATATCTTCGAGCTCTTGTGGTCACTAATGCTATT
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G13140.1 (Glycine max), 3'ss of exon 1
------cacaataactttatgcatgttttatattttatttttattttacaaatgaagtgattaacaaaaaacactgcttagctgttccattctttttttttttcagTCCTGAGTCTGTCATCAAGAGATTTGAACAAAGGGATCATGCAGTAGACAGTAGAGGAGTTGCAGAATATCTTCGAGCTCTAGTGGTCACTAATGCAATT
| ||| ||| ||| | ||| ||| ||| ||||| ||||| | | | || | || |||| | | |||||| |||||||||||||||||||||| |||||| |||||| ||| |||||||||| |||||||| |||||||||||||||||| |||||||||||||| |||
acaatgaagaatgtagtta-gcacttggaataattt-tttcagttttatgaatgatttcagtttgcgtcaaagtttctcttatgtt----tttcattttttgccagTCCTGAGTCTGTCATCAAGCACTTTGAAGGAAGGGAGGGTGCTGTAGACAGTATAGGAGTTGTAGAATATCTTCGAGCTCTTGTGGTCACTAATGCTATT
upper sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G53170.1 (Arabidopsis thaliana), 3'ss of exon 1
-cacaataactttatgcatgttttat------attttatttttattttacaaatgaagtgattaacaaaaaacactgcttagctgttccattctttttttttttcagTCCTGAGTCTGTCATCAAGAGATTTGAACAAAGGGATCATGCAGTAGACAGTAGAGGAGTTGCAGAATATCTTCGAGCTCTAGTGGTCACTAATGCAATT
|| ||| || | | | | || ||| | | || | || | || | || | | || | | | | | || |||| || ||||||||| |||| | | | |||||||||||||| || |||| || |||||||||||||| |||||| |||||||||| || | || ||||| ||
gtacg-taatttcaccaacctctaattgattggtttcgtaggtgttgttgaattcaatttgttcttagttgattctatgtggtagctaatattttcttttaatttagTCCTGAGGCTGTAGTTCAACGGTTTGAACAAAGGGAACACACAGTGGATAGTAGAGGAGTTGCTGAATATATTCGAGCTCTTGTCATTACAAATGCTATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgaagtgattaacaaaaaacactgcttagctgttccattctttttttttttcagTCCTGAGTCTGTCATCAAGAGATTTGAACAAAGGGATCATGCAGTAGACAGTAGAGGAGTTGCAGAATATCTTCGAGCTCTAGTGGTCACTAATGCAATT
gattaac putative branch site (score: 2)
cttagctgttccattc putative PPT
attctttttttttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacaataactttatgcatgttttatattttatttttattttacaaatgaagtgattaacaaaaaacactgcttagctgttccattctttttttttttcagTCCTGAGTCTGTCATCAAGAGATTTGAACAAAGGGATCATGCAGTAGACAGTAGAGGAGTTGCAGAATATCTTCGAGCTCTAGTGGTCACTAATGCAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- caataac
- - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - - - -aaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acactgc