Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAGATAAGTTCCCAGCTGCATCTTTTTCTGGTCGTCCAATTCTGTCTGAAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAGgtaatgtgctactgctattttttttttcatgatttatatcatgcattcatatttaaatacttcaatctgagcacacctgttttggctttacag

Basic information

species Oryza sativa
transcript LOC_Os04g41100.4
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g41100.6 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G139038_T01 (Zea mays), 5'ss of exon 5
AAGAGATAAGTTCCCAGCTGCATCTTTTTCTGGTCGTCCAATTCTGTCTGAAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAGgtaatgtgctactgctattttttttttcatgatttatatcatgcattcatatttaaatacttcaatctgagcacacctgttttggctttacag
||| ||||||||||||||||||||||||||||| || ||||| ||||||||||| ||||||||||| || ||||  || ||||| || |||||||| |||||     || |||  || | |    |      || ||||  |  ||| ||  | |       || ||||||||||| |||||    | |||||
AAGGGATAAGTTCCCAGCTGCATCTTTTTCTGGGCGACCAATCCTGTCTGAAGCTGGTTTTGATCTATTGAATAGACTGCTAACTTATGATCCTGATAAGgt-----gcaacttttactctcaaatcggcatttgatattct-tatt-atcatcattcgtaccagtctgagcacacttgtttctcttgtacag

upper sequence: LOC_Os04g41100.6 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G179097_T08 (Zea mays), 5'ss of exon 5
AAGAGATAAGTTCCCAGCTGCATCTTTTTCTGGTCGTCCAATTCTGTCTGAAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAGgtaatgtgctactgctattttttttttcatgatttatatcatgcattcatatttaaatacttcaatctgagcacacctgttttggctttacag
||| |||||||||||||| || ||||||||||| || ||||| ||||||||||| ||||||||||| || || |  || || || || || ||||| |||||   ||  |    | | ||  | |||  |  |||| ||  |  ||| ||  | |   |   ||  |||||||||| | |||      |||||
AAGGGATAAGTTCCCAGCCGCTTCTTTTTCTGGGCGACCAATCCTGTCTGAAGCTGGTTTTGATCTATTGAACAGACTGCTGACTTATGACCCTGATAAGgtgcagtttttactcaaattggtatttgtt--tttagatt-tttatt-atcatcatgcataccagactgagcacacttttttctctcgtacag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|218494622|gb|FG958132.1|FG958132
EST:     AAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAG                         CGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCT
genomic: AAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAGgtaatgtgct ... ggctttacagCGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCT
EST: gi|44675738|gb|CR289172.1|CR289172
EST:     AAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAG                         CGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGCTCCGTGAAGTTCCT
genomic: AAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAGgtaatgtgct ... ggctttacagCGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCT
EST: gi|29631235|gb|CB636244.1|CB636244
EST:     AAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAG                         CGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCT
genomic: AAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAGgtaatgtgct ... ggctttacagCGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCT
EST: gi|86910572|gb|CI294713.1|CI294713
EST:     AAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAG                         CGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCT
genomic: AAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAGgtaatgtgct ... ggctttacagCGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCT
EST: gi|58611941|gb|CK039653.1|CK039653
EST:     AAGCAGGTTTTGATCTGTTAAATAATCTTGTAACATACGATCCTGAGAAG                         CGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCT
genomic: AAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAGgtaatgtgct ... ggctttacagCGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCT
EST: gi|29679248|gb|CB675523.1|CB675523
EST:     AAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAG                         CGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCT
genomic: AAGCAGGTTTTGATCTGTTAAATAATCTTCTAACATACGATCCTGAGAAGgtaatgtgct ... ggctttacagCGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCT