Sequence
atgc intronic sequence ATGC exonic sequencegtattttattggagactcacgcttcttttcagtattcataatctgatactatgctgtcctgttatctgtctcctgctcattgctttaatctaaattcaacatatattgttttgcagCAATTGTACTCCCTCTTTGACCCTGTTCATGGGGCTAAAAAATTGGAACAACAGAATCTCCCTCCTGAAGAAATTGATGTTCTTGAACAGAATTTCCTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G27800.1 (Glycine max), 3'ss of exon 2
gtattttattggagactcacgcttcttttcagtattcataatctgatactatgctgtcctgttatctgtctcctgctcattgctttaatctaaattcaacatatattgttttgcagCAATTGTACTCCCTCTTTGACCCTGTTCATGGGGCTAAAAAATTGGAACAACAGAATCTCCCTCCTGAAGAAATTGATGTTCTTGAACAGAATTTCCTGA
| || || |||| | | ||| | | | || | | | ||| | | | | | | | ||||||||| | |||||||||||||||||||| |||||||| |||| |||||||| ||||| | || | |||||||||||||| ||||||||||||||| |||
----------------------------gtatcatctatttcttgat--ttttctgacataattatagttactttgtggttgttatgg----agcttgattcctttaagcttgcagCAACTATACTCCCTCTTTGACCCTGTACATGGGGCGCAAAAGTTGGAACAGCAGAAGTTATCTTCCGAAGAAATTGATGTGCTTGAACAGAATTTCTTGA
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G05180.1 (Glycine max), 3'ss of exon 2
gtattttattggagactcacgcttcttttcagtattcataatctgatactatgctgtcctgttatctgtctcctgctcattgctttaatctaaa-ttcaacatatattgttttgcagCAATTGTACTCCCTCTTTGACCCTGTTCATGGGGCTAAAAAATTGGAACAACAGAATCTCCCTCCTGAAGAAATTGATGTTCTTGAACAGAATTTCCTGA
|| |||| | || | | ||| || | | | || ||| | | | | | | | || |||||| | |||||||||||||| ||||| || ||||| |||| |||||||| ||||| | || | |||||||||||||| ||||||||||||||| |||
-----------------------------------gtatcatctatttcttgatttttctgacataatcatagttacctttaggttattgtggagcttgattcctttaaactttcagCAACTTTACTCCCTCTTTGATCCTGTACACGGGGCACAAAAGTTGGAACAGCAGAAGTTATCTTCCGAAGAAATTGATGTGCTTGAACAGAATTTCTTGA
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G07370.1 (Glycine max), 3'ss of exon 2
gtattttattggagactcacgcttcttttcagtattcataatctgatactatgctgtcctgttatctgtctcctgctcattgctttaatctaaattcaacatatattgttttgc------agCAATTGTACTCCCTCTTTGACCCTGTTCATGGGGCTAAAAAATTGGAACAACAGAATCTCCCTCCTGAAGAAATTGATGTTCTTGAACAGAATTTCCTGA
|||||| | | || || ||| | | | | || | || | | | || | || | | | || ||||| ||||| | || || |||||||| ||||| ||| | | || |||||||| ||||| | |||| ||||||||||||||||||||||||||||||| |||
-------------------------------gtattcttttttcttcaccattttgtgatacaaatagcttagtgat-atggttggagcctgattttttcttttctttttttgttccttaagCAACTCTATTCTCTCTTTGATCCTGTATCCGGGACGCAGAAGTTGGAACACCAGAAGTTACCTCGTGAAGAAATTGATGTTCTTGAACAGAATTTCTTGA
upper sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G26360.1 (Glycine max), 3'ss of exon 2
gtattttattggagactcacgcttcttttcagtattcataatctgatactatgctgtcctgttatctgtctcctgctcattgctttaatctaaattcaacatatattgttttgcagCAATTGTACTCCCTCTTTGACCCTGTTCATGGGGCTAAAAAATTGGAACAACAGAATCTCCCTCCTGAAGAAATTGATGTTCTTGAACAGAATTTCCTGA
| |||| | ||| | |||||| | | || || || | || | ||| ||| || | | || || ||||| | || || |||||||| ||||| |||||| | || |||||||| ||||| | |||| ||||||||||||||||||||| || |||||| |||
------------------gtattcttttttcttcaccattttgtgatacaa-atagcttagtgatgtggttagagcctgatttttttttctttcttt----ttttgtgcctta-agCAACTCTATTCTCTCTTTGATCCTGTGTCCGGGGCTCAGAAGTTGGAACAGCAGAAGTTACCTCGTGAAGAAATTGATGTTCTTGAGCAAAATTTCTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatctgtctcctgctcattgctttaatctaaattcaacatatattgttttgcagCAATTGTACTCCCTCTTTGACCCTGTTCATGGGGCTAAAAAATTGGAACAACAGAATCTCCCTCCTGAAGAAATTGATGTTCTTGAACAGAATTTCCTGA
atctaaa putative branch site (score: 3)
ttgtttt putative PPT
tttaatctaaattcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttattggagactcacgcttcttttcagtattcataatctgatactatgctgtcctgttatctgtctcctgctcattgctttaatctaaattcaacatatattgttttgcagCAATTGTACTCCCTCTTTGACCCTGTTCATGGGGCTAAAAAATTGGAACAACAGAATCTCCCTCCTGAAGAAATTGATGTTCTTGAACAGAATTTCCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA