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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccattacatatttagcaagaagtggttagatctttggtctgtggaaataattcacttgaaatattctatctcagGTGACAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGTGATCATTATGGTACTATGCGAATACAAGGCAATAATGAATATTCGTGCAAGTTGA

Basic information

species Oryza sativa
transcript LOC_Os03g49770.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g49770.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G157172_T01 (Zea mays), 3'ss of exon 7
------gtaccat-tacatatttagcaagaagtggttag---atctttggtctgtggaaataattcac------ttga------aatattctat-ctcagGTGACAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGTGATCATTATGGTACTATGCGAATACAAGGCAATAATGAATATTCGTGCAAGTTGA
       ||  || |   | ||  | || |  | ||||    || | || || | || | | | | |       ||||      ||| |  |||  ||||||||||||||| |||||||||||||||||||| || || ||||| ||||| |||||||||||||| |||||||| |||  ||||||||| || ||| | |
ttaaatttataatgtttgtcttaggaaaaacctagttaatatatttatgatcagaggtagtgactaatagatgattgacctatcaatttaatatgttcagGTGACAACTTCAATTTACAATCTCATATTGGGCAAGCTATATTGCGATCACTATGGTACTATGCGCATACAAGGTAATTGTGAATATTCATGTAAGCTTA

upper sequence: LOC_Os03g49770.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G147332_T01 (Zea mays), 3'ss of exon 6
--------------------gtaccat-tacatatttagcaagaagtggt------tagatctttggtctgtggaaataattcacttgaaatattctatctcagGTGACAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGTGATCATTATGGTACTATGCGAATACAAGGCAATAATGAATATTCGTGCAAGTTGA
                      || || || || | |    |||  | ||      |||||  ||| ||| |  |  ||||| | | |||||||      ||||||||||||||| |||||||||||||||||||| || || ||||| ||||| |||||||||||||| || ||||| |||  ||| ||||| || ||| | |
gtttggcttagaaaaaaccgacacaatatatatctatgatcagagatagtaactaatagatgattgatctatcaatttaattgattggaaatat----gttcagGTGACAACTTCAATTTACAATCTCATATTGGGCAAGCTATATTGCGATCACTATGGTACTATGCGCATTCAAGGTAATCGTGAGTATTCATGTAAGCTTA
















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|29682317|gb|CB678592.1|CB678592
EST:     GTGTGCTAACCTTGGAGTTCGATGATGGTGAAGTTTTCCAGTGGAGCAAG                         GTGACAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGTGATCAT
genomic: GTGTGCTAACCTTGGAGTTCGATGATGGTGAAGTTTTCCAGTGGAGCAAGgtaccattac ... tctatctcagGTGACAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGTGATCAT
EST: gi|27546683|gb|CA764876.2|CA764876
EST:     TGTGCTAACCTTGGAGTTCGATGATGGGTGAAGTTTTNCAGTGGAGCAAG                         GTGACAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGNGATCAT
genomic: TGTGCTAACCTTGGAGTTCGATGATGG-TGAAGTTTTCCAGTGGAGCAAGgtaccattac ... tctatctcagGTGACAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGTGATCAT
EST: gi|163927376|gb|EG709904.1|EG709904
EST:     GTGTGCTAACCTTGGAGTTCGATGATGGTGAAGTTTTCCAGTGGAGCAAG                         GTGACAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGTGATCAT
genomic: GTGTGCTAACCTTGGAGTTCGATGATGGTGAAGTTTTCCAGTGGAGCAAGgtaccattac ... tctatctcagGTGACAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGTGATCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtggttagatctttggtctgtggaaataattcacttgaaatattctatctcagGTGACAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGTGATCATTATGGTACTATGCGAATACAAGGCAATAATGAATATTCGTGCAAGTTGA
                                            ttctatctc  CT-rich tract
                         aaataattcacttgaa  TA-rich tract