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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTACCTATTCATTGGTATATAATGACCAGCCCCTTCACCGATGACATCACTCGCAAATTCTTCGAAAGCCGTAAATACTTTGGCTTAGAGGCAGACCAAgtaagatcaagtacttttttttttcatttgtgttaactattccaatggaatttcaacaaaagatccaacaggatcccccattcactagtaatgtttaataggtaggtttgaacagctgaacattttcttggcag

Basic information

species Oryza sativa
transcript LOC_Os04g52370.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52370.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G019986_T04 (Zea mays), 5'ss of exon 6
CGTACCTATTCATTGGTATATAATGACCAGCCCCTTCACCGATGACATCACTCGCAAATTCTTCGAAAGCCGTAAATACTTTGGCTTAGAGGCAGACCAAgtaagatcaagtacttttttttttcatttgtgttaactattccaatggaatttcaacaaaagatccaacaggatcccccattcactagtaat--gtttaataggtaggtttgaacagctgaacattttctt-ggcag
 || |  || || |||||||||||||| ||||||||||| ||||    |||||||||||||||||||| ||||| |||||||||| ||||  | |||||||||||  |     ||     || |   ||||| | | |||||||  | |||||            |||||  |  ||| | |||   ||||   || |  |    || ||||    |||||||  |||||| |||||
TGTGCTGATCCACTGGTATATAATGACAAGCCCCTTCACAGATGCTTCCACTCGCAAATTCTTCGAAACCCGTAGATACTTTGGCCTAGACCCTGACCAAgtaagtgc---ctctcaaagttgtttgttgtgctgaatattccatcgcaatttt-----------caacaaaactcccgaatcatatgtaagaggtctgtttcccagatttgttgtgctgaaccctttctttggcag

upper sequence: LOC_Os04g52370.2 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv01s0011g01420.t01 (Vitis vinifera), 5'ss of exon 6
CGTACCTATTCATTGGTATATAATGACCAGCCCCTTCACCGATGACATCACTCGCAAATTCTTCGAAAGCCGTAAATACTTTGGCTTAGAGGCAGACCAAgtaagat---caagtacttttttttttcatttg--tgttaactatt--ccaatggaatttcaacaaaagatccaacaggatcccccattcactagtaatgtttaataggtaggtttgaacagctgaacattttcttggcag
 || || ||||||||||| || ||||| || || || || |||||  |||| |||||||| || ||||||| ||||||||||||| | || ||||| ||||||||||     |  ||| || |||||  | |   |||||  | ||      |||  |||   |  |   | |||   | ||     | |  || |  | | |  ||  |   |||    |  | |  |||      |   
TGTGCCAATTCATTGGTACATTATGACGAGTCCATTTACTGATGATGTCACCCGCAAATTTTTTGAAAGCCATAAATACTTTGGCCTTGAAGCAGATCAAgtaagatgttttaacactcttatttttgttataattgttagttcttgatttctggtgtttttcctcactctgcaatgtgttcttttgtcccttattt-tatattttattttattttatttattttattattgatgcag---
















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|58674987|gb|CK063674.1|CK063674
EST:     CTCGCAAATTCTTCGAAAGCCGTAAATACTTTGGCTTAGAGGCAGACCAA                         GTGACATTTTTCCAACAAGGCACCCTTCCATGT
genomic: CTCGCAAATTCTTCGAAAGCCGTAAATACTTTGGCTTAGAGGCAGACCAAgtaagatcaa ... ttcttggcagGTGACATTTTTCCAACAAGGCACCCTTCCATGT
EST: gi|396941374|gb|HO188583.1|HO188583
EST:     CTCGCAAATTCTTCGAAAGCCGTAAATACTTTGGCTTAGAGGCAGACCAA                         GTGACATTTTTCCAACAAGGCACCCTTCCATGTGTTTCTGCTGATGGCAGA
genomic: CTCGCAAATTCTTCGAAAGCCGTAAATACTTTGGCTTAGAGGCAGACCAAgtaagatcaa ... ttcttggcagGTGACATTTTTCCAACAAGGCACCCTTCCATGTGTTTCTGCTGATGGCAGA
EST: gi|428647|gb|D24799.1|D24799
EST:     GTAAATACTTTGGCTTAGAGGCAGACCAA                         GTGACATTTTTCCAACAAGGCACCCTTCCATGTGTTTCTGCTGATGGCAGA
genomic: GTAAATACTTTGGCTTAGAGGCAGACCAAgtaagatcaa ... ttcttggcagGTGACATTTTTCCAACAAGGCACCCTTCCATGTGTTTCTGCTGATGGCAGA