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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgtcttgcctagtgcaaagccttccctgtcagcgtgattatggtttatgtttacgattggaatggctgttgttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACG

Basic information

species Oryza sativa
transcript LOC_Os12g27520.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g27520.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G063792_T06 (Zea mays), 3'ss of exon 6
gtatttgtcttgcctagtgcaaagccttccctg--tcagcgtgattatggtttatgtttacgattggaatggctgttgttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACG
|||| | || || ||| || ||||| || |||   |||||  |||| ||||     |||| |||||   |||      |  |||||||||| ||||||||||||||| |||||||| ||||||||||||||||| || |||||||| ||||||
gtatctatcgtgtctattgaaaagcttttcctagttcagctcgatt-tggtgatattttatgattgtg-tgg-----atcttgttcagGACATGGATGGAGTTACCCATGTGATATCTGGAGTGTTGGTTGTATTCTTGTTGAGCTTTGCACG

upper sequence: LOC_Os12g27520.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G179308_T03 (Zea mays), 3'ss of exon 7
gtatttgtcttgcctagtgcaaagccttccctg--tcagcgtgattatggtttatgtttacgattggaatggctgttgttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACG
|||| | |  ||   |||| ||||| || |||   ||||| ||||| |||| |   |||| || ||   ||| |  ||   |||||||||||||||||||||||||| |||||||| ||||||||||||||||| || |||||||| ||||||
gtatctattgtgttcagtgaaaagcttttcctagttcagcctgatt-tggtgtcattttatgactgcg-tggatcatg---tgttcagGACTTGGATGGAGTTACCCATGTGATATCTGGAGTGTTGGTTGTATTCTTGTTGAGCTTTGCACG

upper sequence: LOC_Os12g27520.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA05G02740.3 (Glycine max), 3'ss of exon 7
-------------------------------------------gtatttgtcttgcctag--tgcaaagccttccctgtcagcgtgattatggtttatgt-ttacgattggaatggctgttgttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACG
                                           |  ||     ||  | |  ||   |  |||  |  |||      ||    | | |||  ||   |||   | |    || | | || ||||||||| ||||| || || ||||||||||||||||| || |||||| |||||||  ||||||| 
gtatatacacatactgtacatgctgtggaaagaatgcctgcctgccttaactgtgttttgcatgttgacacttgacaatcatgagacttgctatatgtgtgctaaagttgattttggcaatggtgt-tttagGACTTGGCTGGAGCTATCCATGTGATATATGGAGTGTGGGATGTATATTGGTTGAATTATGCACA

upper sequence: LOC_Os12g27520.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA06G18530.1 (Glycine max), 3'ss of exon 7
------------------------------gtatttgtcttgcctagtgcaaagc----cttccctgtcagcgtgattatggtttatgtttacgattggaa--tggctgttgttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACG
                              || |||   | |     |     |     |||||    ||  ||| ||||| |      | |  | | ||   ||||  | ||| |||  ||||||||| ||||| || || ||||||||||||||||| |||||||||||||||||  ||||||| 
gtacataaatattcagtaaaaatgctacgagtttttaattgggtacatatgctgttatacttccaaaacatggtgtttatgatgccaactgaatacttgatattggcaatggttttgt--agGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGTTGTATACTGGTTGAATTATGCACT

upper sequence: LOC_Os12g27520.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA04G36360.1 (Glycine max), 3'ss of exon 7
----gtatttgtcttgcc-tagtgcaaagccttccctgtcagcgtgattatggtttatgtttacgattggaatggctgttgttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACG
     ||  | |   |   || ||| | |  ||     |     |||| |||     || ||||  |   | ||||  | ||| |||  ||||||||| ||||| || || ||||||||||||||||| || |||||| |||||||  ||||||| 
gtacataaatattcagtaataatgctatgattttttaattgtgctgataatgccaactgattact-tgatattggcaatggttttgt--agGACTTGGGTGGAGCTATCCATGTGATATATGGAGTGTGGGCTGTATATTGGTTGAATTATGCACT

upper sequence: LOC_Os12g27520.1 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 8
--------------------------------------------------------------------------------gtatttgtcttgcctagtgcaaagccttccctgtcagcgtgattatggtttat-gtttacgattggaatggctgttgt-tctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACG
                                                                                  |  |  |  |  |  |  || |||            |||  ||| |||  | | | | || |    |   | |  | | | |  ||| |||||||||||||| || |||||||||||||||||||| |||||  |||| ||| ||||||||
gtatgccatcaaatatctgccattgtttttctgttgtcatgagtcagtatggtgttctaccattctttcaaattagttggccagatcacaggtttcttttaatgcccaaggaagacaagtggatatagttccttgctgatgaatacgctttttttcatgtttatgtagGGCTTGGATGGAGTTATCCATGTGATATATGGAGTGTTGGATGTATCTTGGTGGAGTTATGCACG

upper sequence: LOC_Os12g27520.1 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv01s0137g00580.t01 (Vitis vinifera), 3'ss of exon 8
gtatttgtcttgcctagtgcaaagccttccctgtcagcgtgattatggttta-tgtttacgattggaatggctgttgttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACG
     ||| ||     || |    |  |     |   | || |||   || |  | |    | ||  ||     |||||   |||||| |||||||||||||| || ||||| || ||||| |||||||||||| |||| || |||||  ||
----gtgtgtttatatgttcctttctgttatcattgacttgcttacatttcagcggtcctcagtgtcatcatatttgttt--ttcagGGCTTGGATGGAGTTATCCATGTGACATGTGGAGCGTTGGTTGTATATTGGTGGAACTATGTTCG

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|29632958|gb|CB637967.1|CB637967
EST:     AGGCATTATCGAGCTCCAGAAGTTATCTTGG                         GACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGG
genomic: AGGCATTATCGAGCTCCAGAAGTTATCTTGGgtatttgtct ... ttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGG
EST: gi|88845676|gb|CI008673.1|CI008673
EST:     TCGAGCTCCAGAAGTTATCTTGG                         GACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGG
genomic: TCGAGCTCCAGAAGTTATCTTGGgtatttgtct ... ttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGG
EST: gi|29675908|gb|CB672183.1|CB672183
EST:     GACCTATGTGGTGTCTACTAGGCATTATCGAGCTCCAGAAGTTATCTTGG                         GACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGG
genomic: GACCTATGTGGTGTCTACTAGGCATTATCGAGCTCCAGAAGTTATCTTGGgtatttgtct ... ttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcagcgtgattatggtttatgtttacgattggaatggctgttgttctgttcagGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACG
                                             ttctgttc  CT-rich tract
                 tttatgttta  TA-rich tract