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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGGGTGACCGCTATTGTGAAAATGAGGTCTATTGCATGTTGCATGCAGCAAAACTTTGCATACGACGTGATCCTCATTCAAGGCCCCGCATGTCTCATgttagttttttccagttctatctgcaattattttgttcttagacattagtacactggatcttctaaatgcttttcctttattttatcttttgtttag

Basic information

species Oryza sativa
transcript LOC_Os01g41870.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g41870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G480607_T06 (Zea mays), 5'ss of exon 8
CTTGGGTGACCGCTATTGTGAAAATGAGGTCTATTGCATGTTGCATGCAGCAAAACTTTGCATACGACGTGATCCTCATTCAAGGCCCCGCATGTCTCATgttagttttttccagttctatctgcaattattttgttcttaga--cattagtaca-ctggatcttctaaatgcttttcctttattttatcttttgtttag---
  | || || ||||| | |||||||||||| || |||||| |||| || |||||  | |||||| |||| || || ||||||||||| |||||||| |||||||||         |   | ||  |||| ||  ||    | |  ||||   | | || |||    |  ||||||   | |   | |||||||||  ||    
ACTCGGAGAGCGCTACTCTGAAAATGAGGTGTACTGCATGCTGCACGCGGCAAACTTGTGCATAAGACGCGACCCACATTCAAGGCCTCGCATGTCCCATgttagt-------gataaaaactaaaatttttacgtctccatatccattgacaaagctagattgcatctatgcttacgcct---tctatcttttgaataaaag

upper sequence: LOC_Os01g41870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv11s0016g02430.t01 (Vitis vinifera), 5'ss of exon 8
CTTGGGTGACCGCTATTGTGAAAATGAGGTCTATTGCATGTTGCATGCAGCAAAACTTTGCATACGACGTGATCCTCATTCAAGGCCCCGCATGTCTCATgttagttttttccagttctatctgcaattattttgttcttagacattagtacactggatcttctaaatgcttttcctttattttatcttttgtttag----
| |  |  || ||||||  || || || || | | ||||| |||||   ||     | ||||| | ||| ||||||||||| ||||||||||||||||| ||| ||   ||     ||  | | |||   | || ||   ||   || ||  |||  |       | | | ||| ||  ||  ||||         |    
CCTAAGGAACTGCTATTCGGAGAAAGAAGTTTCTGGCATGCTGCATTGTGCCTCCTTGTGCATCCAACGGGATCCTCATTCTAGGCCCCGCATGTCTCAGgttggtgaatttagactcatttttcaaaactgttttttgaagtagtttgtggactaaacacaactattaccttttcta-atcatatccaaaaaaatgagaa

upper sequence: LOC_Os01g41870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv09s0002g02420.t01 (Vitis vinifera), 5'ss of exon 8
CTTGGGTGACCGCTATTGTGAAAATGAGGTCTATTGCATGTTGCATGCAGCAAAACTTTGCATACGACGTGATCCTCATTCAAGGCCCCGCATGTCTCATgttagttttttccagttctatctgcaattattttgttcttagacattagtacactggatcttctaaatgcttttcctttattt--tatcttttgtttag-----
  ||||  || | ||||  ||  | |||||||||||||||||||||||||||    | ||||||||  | ||||||||| ||||||| || ||||| || || ||     ||       |    |  | |  || ||||    ||||    ||    | ||  |||    ||||  |||| ||  ||  |     | |      
GCTGGGAAACTGTTATTCGGAGCAGGAGGTCTATTGCATGTTGCATGCAGCATCCTTGTGCATACGGAGGGATCCTCATGCAAGGCCTCGGATGTCACAGgtaagaaacatcttaacagaaaaccggtcaactttttctagagcattttccca----aactgttaagcaatttttatttaattgttacttaaaaatcatcattt

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|25798254|gb|CA754215.1|CA754215
EST:     AAAACTTTGCATACGACGTGATCCTCATTCAAGGCCCCGCATGTCTCCAT                         GT-CTACGCATAATAGAGAGCGAACTTGGTTG
genomic: AAAACTTTGCATACGACGTGATCCTCATTCAAGGCCCCGCATGTCTC-ATgttagttttt ... ttttgtttagGTTCTACGCATACTAGAGGGCGA-CATGGTTG