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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATATATTTATGCCACCACTAATCACAAAATGGCAGCAACTTGCCAACTCTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAGgtacttacagtttttgtctgtgcttaccttctctagtttgaacatgctaaatttgatttgaaggtcccttcatacccattttagagcatcttttgcgata...

Basic information

species Oryza sativa
transcript LOC_Os04g59494.1
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g59494.4 (Oryza sativa), 5'ss of exon 18
lower sequence: GRMZM2G376731_T01 (Zea mays), 5'ss of exon 18
AGATATATTTATGCCACCACTAATCACAAAATGGCAGCAACTTGCCAACTCTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAGgtacttacagtttttgtctgtgcttaccttctctagtttgaacatgctaaatttgatttgaaggtcccttcat-acccattttagagcatcttttgcgata-
||||||||||||||| ||  | ||||| || |||||||||||| |||| ||||| |||||| |||| ||||| || ||||||||||||||||| || ||||||||    |||||  ||||||   | | ||| | ||||   |    || |  | || || |  ||   |  | |  || ||| ||| |    ||||  |  
AGATATATTTATGCCGCCTTTGATCACGAAGTGGCAGCAACTTTCCAATTCTGACAAAGATCTATTTCCACTCCTTGAATGCTTTACATCTATTGCACAGgtact-gtggttttaatctgtggaaatcatctat-gttttttctgaatataccttatctggaaatcatctattgaaacagtttggagtaggagttgctttta

upper sequence: LOC_Os04g59494.4 (Oryza sativa), 5'ss of exon 18
lower sequence: GLYMA10G42960.1 (Glycine max), 5'ss of exon 18
AGATATATTTATGCCACCACTAATCACAAAATGGCAGCAACTTGCCAACTCTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAGgtacttacagtttttgtctgtgcttaccttctctagtttgaacatgctaaatttgatttgaaggtcccttcatacccattttagagcatcttttgcgata--------------------------------------------------
 || ||  | ||||||||| ||||    ||||||||||||||| | || || || |||||| | || ||||| || |||||||||||||||||  | || |||   |||  | || |     | ||  | |   |   |  |   |   ||||||     | | ||  |  |     |  ||   | ||    ||  |                                                    
TGACATTCTCATGCCACCATTAATTGAGAAATGGCAGCAACTTTCAAATTCAGACAAAGATCTTTTTCCACTCCTGGAATGCTTTACATCTATATCACATgtatgcacatctgtttttccaacatat-tacatgataatatatgggtggaatttgtgggaacgatctatataatttgaaatttttgtatggactgtaactgtatcatcatatctattttcttgtttctgatggtgttccattttatacag

upper sequence: LOC_Os04g59494.4 (Oryza sativa), 5'ss of exon 18
lower sequence: Vv03s0038g02830.t01 (Vitis vinifera), 5'ss of exon 18
AGATATATTTATGCCACCACTAATCACAAAATGGCAGCAACTTGCCAACTCTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAGgtacttac---agtttttgtctgtgcttaccttctctagtttgaacatgctaaatttgatttgaaggtcccttcatacccattttagagcatctt--ttgcgata
 |||||  | ||||| ||| | ||| |||| |||||||||||| | || || ||||||||  | ||||||||||| || |||||||||||||| || |||||| ||||   ||| ||  | ||  ||||   | | |  ||||    || | ||     |||   |    | | |||   |  || |   |   |  |   |  |
TGATATTCTAATGCCGCCATTGATCGCAAAGTGGCAGCAACTTTCTAATTCAGATAAAGACATTTTCCCACTGCTGGAGTGCTTTACATCTATAGCACAGgtatttacgacagtcttcttttgaccttaagctatgttatttg--tttgttcaaggaacttt---gtctacataatatataaattggtatactatgatcatgcca

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|29626307|gb|CB631318.1|CB631318
EST:     CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAG                         GCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
genomic: CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAGgtacttacag ... tttatttcagGCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
EST: gi|29623086|gb|CB628097.1|CB628097
EST:     CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAG                         GCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
genomic: CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAGgtacttacag ... tttatttcagGCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
EST: gi|58611878|gb|CK039590.1|CK039590
EST:     CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAG                         GCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
genomic: CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAGgtacttacag ... tttatttcagGCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
EST: gi|58660018|gb|CK048698.1|CK048698
EST:     CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAG                         GCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
genomic: CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAGgtacttacag ... tttatttcagGCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
EST: gi|58667508|gb|CK056194.1|CK056194
EST:     CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAG                         GCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
genomic: CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAGgtacttacag ... tttatttcagGCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
EST: gi|58666235|gb|CK054921.1|CK054921
EST:     CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAG                         GCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
genomic: CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAGgtacttacag ... tttatttcagGCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
EST: gi|58662883|gb|CK051569.1|CK051569
EST:     CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAG                         GCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC
genomic: CTGATAAAGATTTATTCCCACTGCTCGAATGCTTTACATCTATCGCTCAGgtacttacag ... tttatttcagGCCCTGGGACCAGGATTTTCACAGTTTGCTGAGCCAGTATTTCAGAGATGC