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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATCGAAGGGTTTGTTAGACAAATATGGCCCTGATAGGGTTCTTGACACACCAATCACAGAGgtgatactcttaaaccttctgagtgaccgctggtgtccactcataagcagctagagtgacgcagtcacattgaagtactgatatgtttgcattctgttcag

Basic information

species Oryza sativa
transcript LOC_Os08g42410.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G043198_T02 (Zea mays), 5'ss of exon 5
ATATCGAAGGGTTTGTTAGACAAATATGGCCCTGATAGGGTTCTTGACACACCAATCACAGAGgtgatactcttaaaccttctgagtgaccgctggtgtccactcataagcagctagagtgacgcagtcacattga-agtactgatatgtttgcattctg-ttcag
||||| ||||||||| | ||||| |||||||| ||||||||||| || || || ||||| ||||| |||      ||||| |      | | |   |||||| ||||||||    ||  |||| |   ||||||   | |||||||||  ||   || || |||||
ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttata------aacctgca----aatcaccattgtccattcataagctatcaggttgacccgaccacattctcattactgatatcattttgttttggttcag

upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G043198_T03 (Zea mays), 5'ss of exon 5
ATATCGAAGGGTTTGTTAGACAAATATGGCCCTGATAGGGTTCTTGACACACCAATCACAGAGgtgatactcttaaaccttctgagtgaccgctggtgtccactcataagcagctagagtgacgcagtcacattga-agtactgatatgtttgcattctg-ttcag---
||||| ||||||||| | ||||| |||||||| ||||||||||| || || || ||||| ||||| |||      ||||| |      | | |   |||||| ||||||||    ||  |||| |   ||||||   | |||||||||  ||   || || |||||   
ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGGTTata------aacctgca----aatcaccattgtccattcataagctatcaggttgacccgaccacattctcattactgatatcattttgttttggttcaggcg

upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv01s0146g00310.t01 (Vitis vinifera), 5'ss of exon 6
ATATCGAAGGGTTTGTTAGACAAATATGGCCCTGATAGGGTTCTTGACACACCAATCACAGAGgtga-tactcttaaa--------ccttctgagtgaccgctggtgtccactcataagcagctagagtgacgcagtcaca--ttgaagtactgatatgtttgcattctgttcag-----------------------
|| || || ||  | || || |||||||||||||| |||||||| || || |||||||||||||| | | || ||| |        || | | ||||        | | | |   |  | |  |   ||||   |  || |  ||    || |  || ||    | | | | ||                        
ATTTCTAAAGGGCTTTTGGAGAAATATGGCCCTGAGAGGGTTCTGGATACCCCAATCACAGAGgtaagttctgttacatgacttgcccatataagtggataagtttttgctcctttttgtaaattttgtgattaatccaaaaattttcttattatta-gtcgttactttctacaacatgtttgttacatattttgcag

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|428335|gb|D24483.1|D24483
EST:     TGTTAGACAAATATGGCCCTGATAGGGTTCTTGACACACCAATCACAGAG                         GCTGGTTTTACTGGAATTGGTGTTGGTGCTGCCTATCAAGGTCTTCGCCCT
genomic: TGTTAGACAAATATGGCCCTGATAGGGTTCTTGACACACCAATCACAGAGgtgatactct ... ttctgttcagGCTGGTTTTACTGGAATTGGTGTTGGTGCTGCCTATCAAGGTCTTCGCCCT
EST: gi|218484233|gb|FG953202.1|FG953202
EST:     TGTTAGACAAATATGGCCCTGATAGGGTTCTTGACACACCAATCACAGAG                         GCTGGTTTTACTGGAATTGGTGTTGGTGCTGCCTATCAAGGTCTTCGCCCT
genomic: TGTTAGACAAATATGGCCCTGATAGGGTTCTTGACACACCAATCACAGAGgtgatactct ... ttctgttcagGCTGGTTTTACTGGAATTGGTGTTGGTGCTGCCTATCAAGGTCTTCGCCCT