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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCACGGACAACATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACGCTCGGCTACAAGACCGTCCTCAAGACGCTGCGCAACTCCAAGGgtatcgatcccgaccgattttttgttgttttgttcgatctggtagtgttagtggatgttgattgattagtttgctcgcttaatccgaattgtagggtagg...

Basic information

species Oryza sativa
transcript LOC_Os05g41110.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g41110.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G044137_T02 (Zea mays), 5'ss of exon 2
AGCACGGACAACATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACGCTCGGCTACAAGACCGTCCTCAAGACGCTGCGCAACTCCAAGGgtatcgatcccgaccgattttttgttgttttgttcgatctggtagtgttagtggatgttgattga--ttagtttgctcgcttaatccgaattgtagggtagg
||||| || | ||||||||||||||||||||||||||||||||||||||||||||| || |||||||||||||||||||||||||||||||||||||||||||||||| ||      |||| |   |  |||  |  ||   |     |  | ||  | || |||  ||     |   ||       || ||||| |   | 
AGCACAGAGAGCATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACCCTGGGCTACAAGACCGTCCTCAAGACGCTGCGCAACTCCAAGGgtatcgattccatttctttttctaa-gcgttgccctttcctttccctctgataga-atcgaatgacattgagccgtatgcccgtatggatttgtacgagtga

upper sequence: LOC_Os05g41110.2 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv13s0064g00850.t01 (Vitis vinifera), 5'ss of exon 2
AGCACGGACAACATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACGCTCGGCTACAAGACCGTCCTCAAGACGCTGCGCAACTCCAAGGgtatcgatcccgaccgattttttgttg-----------ttttgttcgatctggtagtgttagtggatgttgattgattagtttgctcgcttaatcc---gaattgtagggtagg-----
|     || |||||||||||||||||    || ||||||||||||||||||||||||||||||||||||||||| |||||||  ||  | | |||||||||| | | |    |    |||  | ||            | || |    ||| | | | || |||  | | |  |   |  ||  |    | | |     ||| |    | |        
ACTCAAGAAAACATCAACAACAAGCTCGCTCTCGTGATGAAGAGCGGCAAGTACACGCTCGGCTACAAGACCGTGCTCAAGAGCCTCAGAAGCTCCAAGGgt-ttgttatacatttttttcatattaagagctacagatcttttctcttcttgcatttttggtgtgtttggggtttgtgattatcggattaagttttgggaaatacttgatgatggcag

upper sequence: LOC_Os05g41110.2 (Oryza sativa), 5'ss of exon 2
lower sequence: EDP06387 (Chlamydomonas reinhardtii), 5'ss of exon 2
AGCACGGACAACATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACGCTCGGCTACAAGACCGTCCTCAAGACGCTGCGCAACTCCAAGGgta--------------tcgatcccgaccgattttttgttgttttgttcg-atctggtagtgttagtgga-tgttgattgattagt-ttgctcgct-taatccgaattgtagggtagg--------------------------------------------
| |  ||| |||||||||  |   |||  ||||||||||||||| ||||||||||| || ||||||||||||  ||| ||||| ||||||     ||||||||               |||  ||  |||| |  |  ||  |     || | |   |     | |||   |||     | | ||    || ||||    ||   |    |     |                                             
ACCCAGGAGAACATCAACGCCCGTCTGGCGCTGGTGATGAAGAGTGGCAAGTACACTCTGGGCTACAAGACCTGCCTGAAGACCCTGCGCTCGGGCAAGGgtaagtttgcgctcgcgccgacgcccgccgactggtgcttcctcaacccgcaccccctgccccttgtgccctgtgtggggctcagcaccgcacgctgccttctccaccagaaaactgcacatctatctcaccaactttgtctcctcttcttgcccaccgcag

upper sequence: LOC_Os05g41110.2 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ14031 (Selaginella moellendorffii), 5'ss of exon 1
AGCACGGACAACATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACGCTCGGCTACAAGACCGTCCTCAAGACGCTGCGCAACTCCAAGGgtatcgatcccgaccgattttttgttgttttgttcgatctggtagtgttagtggatgttgattgattagtttgctcgcttaatccgaattgtagggtagg
| |  ||| | |||||||||||   ||  |||||||||||||||||||||||||||||| ||||||||||| || |||||  |||||||||     || ||| |  |  ||  |   ||| ||  | ||  | | ||||   | | |  | ||| ||   |                                       
ACCCAGGAGAGCATCAACAACAGATTGGCGCTGGTGATGAAGAGCGGCAAGTACACGCTGGGCTACAAGACGGTGCTCAAATCGCTGCGCAGTGGAAAAGgtgtgaaatccctc---tttgtttctcttgcgattgatccattggcgc-attgggtgcgcag--------------------------------------

upper sequence: LOC_Os05g41110.2 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ13021 (Selaginella moellendorffii), 5'ss of exon 1
AGCACGGACAACATCAACAACAAGCTGCAGCTGGTGATGAAGAGCGGCAAGTACACGCTCGGCTACAAGACCGTCCTCAAGACGCTGCGCAACTCCAAGGgtat-cgatcccgaccgattttttgttgttttgttcgatctggtagtgttagtggatgttgattgattagtttgctcgcttaatccgaattgtagggtagg
| |  ||| | |||||||||||   ||  |||||||||||||||||||||||||||||| || |||||||| || |||||  ||||||| |     || ||| |  ||   |  ||  ||| ||  | ||  | | ||||  || | |  | ||| ||   |                                       
ACCCAGGAGAGCATCAACAACAGATTGGCGCTGGTGATGAAGAGCGGCAAGTACACGCTGGGGTACAAGACGGTGCTCAAATCGCTGCGGAGTGGAAAAGgtgtgtgaaatc--cctctttgtttctcttgcgattgatccagtggcgc-attgggtgcgcag--------------------------------------

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|88400326|gb|CI591016.1|CI591016
EST:     GTACACGCTCGGCTACAAGACCGTCCTCAAGACGCTGCGCAACTCCAAGG                         GGAAGCTGATTATCCTTGCAAACAACTGCCCTCCACTCAGGAAGTCTGAGA
genomic: GTACACGCTCGGCTACAAGACCGTCCTCAAGACGCTGCGCAACTCCAAGGgtatcgatcc ... ttatgtttagGGAAGCTGATTATCCTTGCAAACAACTGCCCTCCACTCAGGAAGTCTGAGA