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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTAAAAAAATGGCCACCTACATTATACTCCGCTTCACCTGTCATATCTGCAATTGAGCCACAGCTAAATTCCTCTTCAATGACTGATTCATTAAAAGAGgtatggaaacattttcttaatggatgtaagacttacacagtatttttgagctctttgacatcttggttctgtttgccatgtag

Basic information

species Oryza sativa
transcript LOC_Os04g11880.3
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g11880.3 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G047675_T01 (Zea mays), 5'ss of exon 2
TGTAAAAAAATGGCCACCTACATTATACTCCGCTTCACCTGTCATATCTGCAATTGAGCCACAGCTAAATTCCTCTTCAATGACTGATTCATTAAAAGAGgtatggaaacatttt-cttaatggatgtaagac------ttacaca--gtatttttgagctctttgac--atcttggttctgtttgccatgtag
| ||||||| |||||||| ||||||||||| || ||||| |||||||||||  |||||||||| ||||| ||||| || ||| |||||||||| ||||||||  |||   |  ||  ||||||  ||||| ||      ||||||    |||| ||   || ||||    || |  |   | | ||||||||||
TATAAAAAATTGGCCACCGACATTATACTCAGCCTCACCGGTCATATCTGCCGTTGAGCCACAACTAAACTCCTCATCGATGGCTGATTCATTGAAAGAGgtggggagggacattatttaatgattgtaaaacatatatttacacttcatattctttccctatttggttgatatctgccttatgtgccatgtag

upper sequence: LOC_Os04g11880.3 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G040247_T01 (Zea mays), 5'ss of exon 10
TGTAAAAAAATGGCCACCTACATTATACTCCGCTTCACCTGTCATATCTGCAATTGAGCCACAGCTAAATTCCTCTTCAATGACTGATTCATTAAAAGAGgtatggaaacatttt-cttaatggatgtaagacttacacagtatttttgagctctttgacatcttggttc-tgtttgccatgtag---------
| ||||||| |||||||| ||||||||||| || ||||| ||||||||||| ||||||||||||||||| ||||| || ||| |||||||||| ||||||||  |||   |  |   |||||| |||||| || || | |     ||     | ||| ||  |||||||  | | |||| | |           
TATAAAAAATTGGCCACCGACATTATACTCAGCCTCACCGGTCATATCTGCCATTGAGCCACAGCTAAACTCCTCATCGATGGCTGATTCATTGAAAGAGgtggggagggacatcatttaatgaatgtaaaacatatatatacacttcattttgtttcactccttggttgatatctgccttatgtgccatgtag
















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|58675059|gb|CK063746.1|CK063746
EST:     CAATTGAGCCACAGCTAAATTCCTCTTCAATGACTGATTCATTAAAAGAG                         GCTTTAGCTGAATTGTATGTCATCAACAGTCAATATGACAAGGCCCTTTCT
genomic: CAATTGAGCCACAGCTAAATTCCTCTTCAATGACTGATTCATTAAAAGAGgtatggaaac ... tgccatgtagGCTTTAGCTGAATTGTATGTCATCAACAGTCAATATGACAAGGCCCTTTCT
EST: gi|66914272|gb|CX101120.1|CX101120
EST:     CAATTGAGCCACAGCTAAATTCCTCTTCAATGACTGATTCATTAAAAGAG                         GCTTTAGCTGAATTGTATGTCATCAACAGTCAATATGACAAGGCCCTTTCT
genomic: CAATTGAGCCACAGCTAAATTCCTCTTCAATGACTGATTCATTAAAAGAGgtatggaaac ... tgccatgtagGCTTTAGCTGAATTGTATGTCATCAACAGTCAATATGACAAGGCCCTTTCT