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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTAGAGAAAATGCTGAATCAATTGCTTTTTATGGCGGTGAAGAAAATGAATTGCAACTTTTGTTGGATCGATTCAGGAGGGCTTTTGAAAACCTTAGCgtaagctttgcttgtatagactttctttcaccatacatcattattcattttacactacttgtttgttctgacatttagttttatagtattggaataggat...

Basic information

species Oryza sativa
transcript LOC_Os01g11946.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g11946.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G074103_T02 (Zea mays), 5'ss of exon 5
AGTTAGAGAAAATGCTGAATCAATTGCTTTTTATGGCGGTGAAGAAAATGAATTGCAACTTTTGTTGGATCGATTCAGGAGGGCTTTTGAAAACCTTAGCgtaagctttgcttgtatagactttctttcaccatacatcattattcattttacactacttgtttgttctga---catttagttttatagtattggaataggat
 |||||||||||||| ||||| |||||||||||||| ||||| |||||||| || |||||||| |||||||| ||||||||||||||||| ||||| || |||||| ||  |||||     | |  |  ||  |   |  ||||||  || |   |  || || ||| |||   ||||       |   ||    | |    |
TGTTAGAGAAAATGCGGAATCGATTGCTTTTTATGGTGGTGAGGAAAATGAGTTACAACTTTTATTGGATCGGTTCAGGAGGGCTTTTGAGAACCTAAGTgtaagcatt-tttgtactt-ttgtaatctacttttgtttgttattc-cttcattgtcttttttagttttgaatacattgcaaaccacgctaaactagttatct

upper sequence: LOC_Os01g11946.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA08G17110.1 (Glycine max), 5'ss of exon 7
AGTTAGAGAAAATGCTGAATCAATTGCTTTTTATGGCGGTGAAGAAAATGAATTGCAACTTTTGTTGGATCGATTCAGGAGGGCTTTTGAAAACCTTAGCgtaagct-ttgcttgtatagactttctttcaccatacatcattattcattttacactacttgtttgttctgacatttagttttatagtattg--gaataggat-
 ||| | ||||||||||||||||||||||| ||  | |||||||||| |||| |||||||| |  || | || || |  || ||||||||||| || |  ||||| | || ||| | ||   || |   ||   ||| |    |   |||||    |  || |  ||    |  || || |  || |  ||   || |   || 
GGTTCGGGAAAATGCTGAATCAATTGCTTTCTACAGTGGTGAAGAAAGTGAAATGCAACTTCTTCTGCAGCGCTTTAAAAGTGCTTTTGAAAATCTGACTgtaagatatttcttctttatgtttac---cattttacttttaaaactatttt-tgttcattatcagtatctatgttaaggtcaattgatttcatgagttttatc

upper sequence: LOC_Os01g11946.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv19s0085g01190.t01 (Vitis vinifera), 5'ss of exon 5
AGTTAGAGAAAATGCTGAATCAATTGCTTTTTATGGCGGTGAAGAAAATGAATTGCAACTTTTGTTGGATCGATTCAGGAGGGCTTTTGAAAACCTTAGCgtaagctttgcttgtatagactttctttcaccatacatcattattcattttacactacttgtttgttctgacatttagttttatagtattggaataggat---
  || | |||||||||||||||||||| || ||| | || || |||| |||| |||||||| || |  | || |||||||| |||||||||||  | | |||| |  |  ||| |||     |||| |   ||| |  ||| |||    || ||||  |||        | | |||   || |   | |     |    |   
TATTCGTGAAAATGCTGAATCAATTGCGTTCTATAGTGGCGAGGAAAGTGAAATGCAACTTCTGATTCAGCGTTTCAGGAGTGCTTTTGAAAATTTAACCgtatggatcccttatatt--tcttctatatgcattc-ccatgattatgatttcactgtttgcagtcaaaggctttttccttgaggatgtcattttctcttaag

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|117219716|gb|CT852228.1|CT852228
EST:     AATTGCAACTTTTGTTGGATCGATTCAGGAGGGCTTTTGAAAACCTTAGC                         GAATTGCTAATAGCATCTCGTAATCTGGAGTTTTTCACCAATGGCTACCGT
genomic: AATTGCAACTTTTGTTGGATCGATTCAGGAGGGCTTTTGAAAACCTTAGCgtaagctttg ... ctgtttgcagGAATTGCTAATAGCATCTCGTAATCTGGAGTTTTTCACCAATGGCTACCGT