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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTATCAGCATCACTAAATGTTAGGATAGTTTATCTAGACATCATGAGGCCATTTGCTGAATCAACTTTGCTAGGgtgagatgcctgtttatctactgtttgcaggagccttagagtaaagcatcttttttattgcttatttatgccttcgttgatggtag

Basic information

species Oryza sativa
transcript LOC_Os06g48770.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g48770.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G140917_T01 (Zea mays), 5'ss of exon 14
GGCTATCAGCATCACTAAATGTTAGGATAGTTTATCTAGACATCATGAGGCCATTTGCTGAATCAACTTTGCTAGGgtgagatgc-----ctgtttatct--------------actgtttgcaggagccttagagtaaag-------------catcttttttattgcttattt---atgccttcgttgatggtag
| || ||||| |||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||| ||||||||||        || ||||  |              | || |||||  | | ||| ||||||              | | | | | |||||| ||||   ||| ||||  |   |  ||
GTCTTTCAGCTTCACTAAATGTTAGGATAGTTTATCTGGACATCATGAGGCCATTTGCTGAATCAACTTTGTTAGGgtgagaacgagatgctatttacttgacattgtcatgccaatggttgcaccatctttatagtaaaaacataatctctctcttttctctcattgctgattttttatgtcttcactttggtcag

upper sequence: LOC_Os06g48770.2 (Oryza sativa), 5'ss of exon 12
lower sequence: AT5G24810.2 (Arabidopsis thaliana), 5'ss of exon 13
GGCTATCAGCATCACTAAATGTTAGGATAGTTTATCTAGACATCATGAGGCCATTTGCTGAATCAACTTTGCTAGGgtgagatgcct----gtttatctactgtttgcaggagccttagagtaaagcatcttttttattgcttatttatgccttcgttgatggtag
| || ||| |  |  | |||||| |||| |||||||| ||||||||||| |||||||| |||||   | || |||||| ||   |||     |||  |  ||  ||  |  |  ||    || |   |||   |       | || |  |  |||           
GACTTTCATCTACTATGAATGTTCGGATTGTTTATCTGGACATCATGAGACCATTTGCCGAATCTGTTCTGTTAGGgtaagcacccttggaatttggcagctcattttatta-tctctttgtgatatatcccgtacgaccataatgtgggttttcag---------
















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|58606319|gb|CK034352.1|CK034352
EST:     ATAGTTTATCTAGACATCATGAGGCCATTTGCTGAATCAACTTTGCTAGG                         GAGTATGACACGTGGGCCCACAGCTAACAGTCAGTGGATTTATGACTCAGC
genomic: ATAGTTTATCTAGACATCATGAGGCCATTTGCTGAATCAACTTTGCTAGGgtgagatgcc ... ttgatggtagGAGTATGACACGTGGGCCCACAGCTAACAGTCAGTGGATTTATGACTCACC
EST: gi|29679895|gb|CB676170.1|CB676170
EST:     ATAGTTTATCTAGACATCATGAGGCCATTTGCTGAATCAACTTTGCTAGG                         GAGTATGACACGTGGGCCCACAGCTAACAGTCAGTGGATTTATGACTCACC
genomic: ATAGTTTATCTAGACATCATGAGGCCATTTGCTGAATCAACTTTGCTAGGgtgagatgcc ... ttgatggtagGAGTATGACACGTGGGCCCACAGCTAACAGTCAGTGGATTTATGACTCACC
EST: gi|58590136|gb|CF988444.1|CF988444
EST:     ATAGTTTATCTAGACATCATGAGGCCATTTGCTGAATCAACTTTGCTAGG                         GAGTATGACACGTGGGCCCACAGCTAACAGTCAGTGGATTTATGACTCACC
genomic: ATAGTTTATCTAGACATCATGAGGCCATTTGCTGAATCAACTTTGCTAGGgtgagatgcc ... ttgatggtagGAGTATGACACGTGGGCCCACAGCTAACAGTCAGTGGATTTATGACTCACC
EST: gi|87005733|gb|CI316152.1|CI316152
EST:     TAGTTTATCTAGACATCATGAGGCCATTTCCTGAATCAACTTTGCCTAGG                         GAGTATGACACGTGGGCCCACAGCTAACAGTCAGTGGATTTATGACTCAC
genomic: TAGTTTATCTAGACATCATGAGGCCATTTGCTGAATCAACTTTG-CTAGGgtgagatgcc ... ttgatggtagGAGTATGACACGTGGGCCCACAGCTAACAGTCAGTGGATTTATGACTCAC