Sequence
atgc intronic sequence ATGC exonic sequence...tataatatgggagattaacttcgtgtgatcatgaaggccacaataatttcaacaaccttgtctctctgttttttaatgataataattcatattacttcagCATGTGGGTTGGTGGTCACCGACAATCATAAGAGGTGATGATCGGGAAGCAGTTCACATTCCAAACCACAAATTCACAGTGAATGTTGTGAGGAATCTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA06G10060.1 (Glycine max), 3'ss of exon 10
-------------------------------------------------------------tataatatgggagattaacttcgt-gtgatcat--gaaggccacaataatt-tcaacaacc-----ttgtctctctgttt------tttaatgataata-attcatatt--------acttcagCATGTGGGTTGGTGGTCACCGACAATCATAAGAGGTGATGATCGGGAAGCAGTTCACATTCCAAACCACAAATTCACAGTGAATGTTGTGAGGAATCTTA
||||| | | || | || ||||| || | || ||| | | |||| || ||| | ||| || ||| || | ||||| ||| || |||||||| || ||||||||||| || ||||| |||||||||||||| || |||||||| ||||| |||||||| || ||||| ||||||||||| ||||| |
gtttgtatctctaccttagaaggaacttttactagtataagtttgatgctggtccattatgaataatttataatttttttattgtcacaatcatgtgacaaatagaagaatcattaccaactgcagattttctttttgtgcaacaacttaaattatgttgtattcaaattttgttttttctccagCATGTAGGCTGGTGGTCACCAACCATCATCAGAGGTGATGATCGTGAGGCAGTTCATATTCCTAACCACAAGTTTACAGTAAATGTTGTGAGAAATCTGA
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA04G10060.1 (Glycine max), 3'ss of exon 11
-----------------------------------------------------tata-atatgggagattaacttcgtgtgatcatg-----aaggccacaataatt-tcaacaacc--ttgtctctctgttttttaatgataataattcatatta------------cttcagCATGTGGGTTGGTGGTCACCGACAATCATAAGAGGTGATGATCGGGAAGCAGTTCACATTCCAAACCACAAATTCACAGTGAATGTTGTGAGGAATCTTA
|||| |||| | || | |||||| || | ||| ||| ||| | || ||| | ||| || ||| || || | | || |||||||| || ||||||||||| || ||||| |||||||||||||| || |||||||| ||||| |||||||| || || || ||||||||||| ||||| |
gtttgtatctctaccttagttactttaatagtataagtttcatgctggtccactatatatataagtatttttatctccacaatcatgtgactaatagaagaatcattaccaatggcagattttctttttgtgcaacaacttcaattatgtatttaaattttgttttttctccagCATGTAGGCTGGTGGTCACCAACCATCATCAGAGGTGATGATCGCGAGGCAGTTCATATTCCTAACCACAAGTTTACTGTAAATGTTGTGAGAAATCTGA
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA06G10050.1 (Glycine max), 3'ss of exon 10
------------------------------------------------tataatatgg-gagattaacttcgtgtgatcatgaaggcca-caataatttcaacaaccttgtctctct-------gttttttaatgataataattcatatta-cttcagCATGTGGGTTGGTGGTCACCGACAATCATAAGAGGTGATGATCGGGAAGCAGTTCACATTCCAAACCACAAATTCACAGTGAATGTTGTGAGGAATCTTA
| || || | ||| | | | ||||| | | | ||| |||| ||| | | | || ||| | | || | | |||||||| || ||||||| || ||||||||||| ||||| | |||||| |||| | ||||||||||| ||||| || ||||| || | || |||||||||||||||||||
gtttgtatctatcacctaactaactgacaaggttgtttaggaggaacagaaaacataatgttattcagtgcaagtgattttcataataagtgatattttccccaagtatatataacttcaaaaaatttcattgtaatcaaatttcatattttctctagCATGTAGGCTGGTGGTCACCAACAATAGTTAGAGGTTCTGATTGTGAAGCAGTTCATATTCCTAATCACAATTTGAGTGTAAATGTTGTGAGGAATCTTA
upper sequence: Vv18s0001g07500.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: PP1S79_156V6.1 (Physcomitrella patens), 3'ss of exon 9
-----tataatatgggagattaacttcgtgtgatcatgaaggccacaataatttcaacaaccttgtctctctgttttttaatgataataattcatattacttcagCATGTGGGTTGGTGGTCACCGACAATCATAAGAGGTGATGATCGGGAAGCAGTTCACATTCCAAACCACAAATTCACAGTGAATGTTGTGAGGAATCTTA
|| | | | || |||| | | | || | | | | |||| | | | | | | || | ||| ||| |||| ||||||||||| ||||| | || ||||| |||||||| ||||| |||||||||||||||||||| |||| || | ||| || | ||| | |
agacgtaaggtgctccgaagtttctctgtgttagtgatctgacactaacagtgt-----attttgtactgcgatctactgagactcggtgttgaaatttgcacagTATGTTGGTTGGTGGTCTCCGACTGTGATTAGAGGAGATGATCGTGAAGCTGTTCACATTCCAAACCACAAGTTCAGTGTAAGTGTAGTCCGTAATTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcaacaaccttgtctctctgttttttaatgataataattcatattacttcagCATGTGGGTTGGTGGTCACCGACAATCATAAGAGGTGATGATCGGGAAGCAGTTCACATTCCAAACCACAAATTCACAGTGAATGTTGTGAGGAATCTTA
ttttaat putative branch site (score: 3)
ttacttc putative PPT
tgttttttaatgataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tataatatgggagattaacttcgtgtgatcatgaaggccacaataatttcaacaaccttgtctctctgttttttaatgataataattcatattacttcagCATGTGGGTTGGTGGTCACCGACAATCATAAGAGGTGATGATCGGGAAGCAGTTCACATTCCAAACCACAAATTCACAGTGAATGTTGTGAGGAATCTTA
- - - - - - - - - - - - - gatcatg
- - - - - - - - - - - - - - - - - - gccacaa
- - - - - - - - - - - - - - - - - - - - - - - - tcaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgataa