Sequence
atgc intronic sequence ATGC exonic sequence...gtataatcccgtgcttacccataatttccaactgataaacccttaataccttattaatattcttcacaatattgaaattctaaagatattaatgtatcagAAAATTCATGTTGCCCCGATGACAAATTACGTTTTGTTCTCGAGGCTAGTCGGCGGTCGAACACAGTCTGTTTGCAACTCTACATCAAAGAAATTGAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0059g00620.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G46220.1 (Glycine max), 3'ss of exon 6
gtataatcccgtgcttacccataatttccaact-gataaacccttaataccttattaatattct-tcacaatattgaaattctaaagatattaatgtatcagAAAATTCATGTTGCCCCGATGACAAATTACGTTTTGTTCTCGAGGCTAGTCGGCGGTCGAACACAGTCTGTTTGCAACTCTACATCAAAGAAATTGAAAT---
|||| | | || | ||||| || || | ||| ||||| || | | | | | |||||| | ||||| ||| |||||||| || | || ||||||||||||| | ||||||||| |||||||||||||| || |||| | ||||| ||||| | || ||||| ||||||
--ataagtttattttctttgttactcctcaactcgacaactctttaggacctttttttgttaatattattgggtctaaattccgagtttattattgtgtcagAAAACTCTTCTT---CCGATGACAAATTCCATTTTGTTCTTGAGGCTAGTCGGCGTTCAAACATGATTTGTTTACAACTTTTCAAGAAAGAGATTGAAGCTTC
upper sequence: Vv12s0059g00620.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G10530.1 (Glycine max), 3'ss of exon 10
------------------------------------------------gtataatcccgtgcttacccataatttccaact-gataaacccttaataccttattaatattcttcacaatattgaaattctaaagatattaatgtatcagAAAATTCATGTTGCCCCGATGACAAATTACGTTTTGTTCTCGAGGCTAGTCGGCGGTCGAACACAGTCTGTTTGCAACTCTACATCAAAGAAATTGAAAT
|||| | | | || | ||||| | || | || ||||| || | | | | | ||||| || ||||| ||| |||||||| || | || ||||||||||||| | ||||||||| |||||||||||||
gtcctaaggatttggtcattttaaccggataactttaatgacttgaagcaataagtttattttcattgttactcgtcaactcaacaactctttgggaccttttttgttaatgttattgggtctacattctgaacttattattgtgtcagAAAACTCTTCTT---CCGATGACAAATTCCATTTTGTTCTTGAGGCTAGTCGGC----------------------------------------------
upper sequence: Vv12s0059g00620.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G32415.1 (Arabidopsis thaliana), 3'ss of exon 6
---------------------gtataatcccgtgcttacccataatttccaactgataaacccttaatacct-tattaatattct-tcacaatattgaaattctaaagatattaatgtatcagAAAATTCATGTTGCCCCGATGACAAATTACGTTTTGTTCTCGAGGCTAGTCGGCGGTCGAACACAGTCTGTTTGCAACTCTACATCAAAGAAATTGAAAT---
| | | || | || | | || | | ||| || | || | | | || ||||||| |||||||||||| |||||| | |||||||||||| ||| | |||| |||||||||||||| ||||||| |||| |||||||||| | |||| ||||||| ||||
gtaggcatctttgctatggagaaacattttagtatatgatggaaaagtagagctaacccggcaacaatgttagcgatattgttttattcttgcaacaaagttctaaaatgtgaaatgtatcagaagATTCATCTAGCCCCGATGACAGATTCCATTTTCTTCTCGAGGCTAGTAGGCGGTCAAACATGACCTGTTTGCAATTGTACACGAAAGAAACTGAAGATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataccttattaatattcttcacaatattgaaattctaaagatattaatgtatcagAAAATTCATGTTGCCCCGATGACAAATTACGTTTTGTTCTCGAGGCTAGTCGGCGGTCGAACACAGTCTGTTTGCAACTCTACATCAAAGAAATTGAAAT
tattaat putative branch site (score: 2)
ttattaatattcttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataatcccgtgcttacccataatttccaactgataaacccttaataccttattaatattcttcacaatattgaaattctaaagatattaatgtatcagAAAATTCATGTTGCCCCGATGACAAATTACGTTTTGTTCTCGAGGCTAGTCGGCGGTCGAACACAGTCTGTTTGCAACTCTACATCAAAGAAATTGAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - -cttaccc
- - - - - - - - - - - - - tccaact
- - - - - - - - - - - - - - - - -gataaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagata