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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtcctccttatctgttttgttttaatgccatttaacttattgaattctctatcattcttttataggtatgagttttcattggacaaaacgtgt...

Basic information

species Oryza sativa
transcript LOC_Os03g52840.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g52840.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G135283_T03 (Zea mays), 5'ss of exon 7
ACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtcctccttat-ctgttttgttttaatgc-catttaacttattgaattctctatcattcttttataggtatgagttttcattggacaaaacgtgt
||||| ||||||||||| || |||  ||| ||||| |||||||||||||| ||||||||||||||||||||||| ||||||||||| |||||||| || | ||||||   | ||  ||| |    |  |  ||| | | |   ||    |   |  || |||| |   | | ||     |       ||  ||  
ACTGACACTAAGAAGATATCTGCAACTTCAATATTTTTTGAGACAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGgt-cattttcctccccgttctagtttatagatacacatattaagcatggcgagcaataatttgttgttttttgcattttagccaaaaaaaagagaagggtt-

upper sequence: LOC_Os03g52840.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA08G37270.1 (Glycine max), 5'ss of exon 7
ACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtcctccttatctgttttgttttaatgccatttaacttattgaattctctatcattcttttat---aggtatgagttttcattggacaaaacgtgt---------
|||||||| || ||||| || ||||| |||||||| |||||||||||||| ||  ||||| ||||||| || || |  || || ||||| |||||    |     |    | | |||| |  |  |  |  |    |||   |  | ||  | ||  ||| ||   |  |    |||||  | |    |||    |         
ACTGATACCAAAAAGATATCTGCAGTCTCGATATTTTTTGAGACAATGCCATATCGATTGAATGAAAGTACAGGATACATCGACTATGACCAGgtattgt---tgcagggtatattttatcatggtagcgatgcttttagctacatttcattgatattttcatgtcatctcatggtttttgtggtgtgaaaatcttgaaatacag

upper sequence: LOC_Os03g52840.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA14G36280.1 (Glycine max), 5'ss of exon 7
ACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtcctccttatctgttttgtttta-atgccatttaacttattgaattctctatcattcttttataggtatga--gttttcattggacaaaacgtgt----
||||| || |||||||| || || || || ||||||||||| |||||||| ||||||||| |||| |||||||| |  || |||||||| |||||     |    | || | |  | |||| |  ||    |||  |||||  ||      |  ||  ||| |   ||  ||  ||||  |||  |      ||      
ACTGACACCAAGAAGATATCGGCTGTATCTATATTCTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAGgtaggtaggtaccattgtattctgtgttgtggatattcttt--cttatcaaag-----agaatcttttaagcagtcggactgtttctatttcagttgctgttcactg

upper sequence: LOC_Os03g52840.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT4G37930.1 (Arabidopsis thaliana), 5'ss of exon 7
ACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtcctccttatctgttttgttttaatgccatttaacttattgaattctctatcattcttttataggtatgagttttcattggacaaaacgtgt
||||| || |||||||| ||||| || || || |||||||| ||||||||||| |||||||| || ||||||||||  || || || |||||||| |      || ||  |  |     |  || |  | | ||||| |     |||   |  || |    ||| || |    |||   |   ||        
ACTGACACCAAGAAGATATCAGCTGTGTCTATCTTCTTTGAAACAATGCCCTATAGATTGGACGAGAGCACTGGCTACATCGACTACGATCAGgttcttaactcttctattaagc--aatcatagtaacttataactaacccgcttcataacaatac----ataagtctttaattttgatttgcag-------

upper sequence: LOC_Os03g52840.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT5G26780.3 (Arabidopsis thaliana), 5'ss of exon 7
ACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtcctccttatctgttttgttttaatgccatttaacttattgaattc-tctatcattcttttataggtatgagttttcattggacaaaacgtgt----------------------------------------------------------------------------
||||| || ||||| || || || || || || || |||||||||||||| |||||||||||||| | |||||| |  ||||||||||| |||||    |    | | || |    ||   |||||||  || ||| |  |   ||  || |  || |  ||  || |||| ||||       ||||    |                                                                              
ACTGACACGAAGAAAATATCGGCTGTATCCATCTTTTTTGAGACAATGCCATACAGATTGGATGAGAACACTGGTTACATTGATTATGACCAGgttggttag--ttcatagccagcttagcttaatgc--ttcaacattctatctttatccaatataccattg-agatatgggtttaatacatacaagcttttcgtttacggttcttatgttaagtaattgaacagtttttaaaccaaagtttatttatttgtgatacaataatttgcag

upper sequence: LOC_Os03g52840.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv00s0211g00100.t01 (Vitis vinifera), 5'ss of exon 7
ACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtcctccttatctgtt-------ttgttttaatgccatttaacttattgaattctctatcattcttttataggtatgagttttcattggacaaaacgtgt--
||||| || ||||| || || ||||| || ||||| |||||||||||||| || |||||| |||| ||||||||||  ||||| ||||| |||||  | | |||   ||   | |        || ||||| | ||||    || |   |||| |   | | | |||      ||| |  |||  |   ||||   || |  
ACTGACACCAAGAAAATATCTGCAGTGTCTATATTTTTTGAGACAATGCCATATAGATTGAATGAGAGCACTGGCTACATTGACTATGACCAGgta-actttccattttgcttatagcaggagttcttttagttccatcc--ctgagcaaatttttacttagttttt----actataatattt--tcacacaacttgtttaa

upper sequence: LOC_Os03g52840.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 5'ss of exon 7
ACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtcctccttatctgttttgttttaatgccatttaacttattgaattctctatcattcttttataggtatgagttttcattggacaaaacgtgt--
|| || || |||||||| || || || || ||||| |||||||||||||| ||||||||||||||||  ||||| |  ||||| ||||| |||||||| |  | ||  | |||  | | | |   |  |  |     |||  |  | |  |   |  |   || | |   | | |   |  |  |  |  | |  
ACCGACACCAAGAAGATATCTGCTGTGTCTATATTTTTTGAGACAATGCCATACAGATTGGATGAAAAAACTGGATATATTGACTATGACCAGgtgcatttacatctctctct-ctctctctctctctctctctctctatctatctatggaagttcttccaattgatgcaaatatg-gtatgctaccatttttag

upper sequence: LOC_Os03g52840.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv00s0211g00120.t01 (Vitis vinifera), 5'ss of exon 7
ACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtcctccttatctgtt-------ttgttttaatgccatttaacttattgaattctctatcattcttttataggtatgagttttcattggacaaaacgtgt--
|| || || ||||| || || ||||| || ||||| |||||||||||||| || |||||| |||| ||||||||||  ||||| ||||| |||||  | | |||   ||   | |        || ||||| | ||||    || |   |||| |   | | | |||      ||| |  |||  |   ||||   || |  
ACCGACACCAAGAAAATATCTGCAGTGTCTATATTTTTTGAGACAATGCCATATAGATTGAATGAGAGCACTGGCTACATTGACTATGACCAGgta-actttccattttgcttatagcaggagttcttttagttccatcc--ctgagcaaatttttacttagttttt----actataatattt--tcacacaacttgtttaa

upper sequence: LOC_Os03g52840.2 (Oryza sativa), 5'ss of exon 7
lower sequence: PP1S21_270V6.1 (Physcomitrella patens), 5'ss of exon 7
ACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgt---------gcaatgtcctccttatctgttttg--ttttaatgccatttaacttattgaattctctatcattcttttataggtatgagttttcattggacaaaacgtgt
|||||||| |||||||||||||| ||||| || ||||| ||||| |||||||||||| || | ||   ||| || |  || || |||||||||||         ||| ||    | |     ||||||  | | |  |   ||| || ||  || |    |    | | ||     | |  |        |||           
ACTGATACAAAGAAGATTTCAGCCGTTTCCATTTTCTTCGAGACTATGCCCTACAGACTGAACGAGTCCACAGGTTATATCGACTATGATCAGgtaaatattgtgcattgctaccgtagaaagttttgaatgtaagcgttgtttcacctaccgagtgaattcggttgccttggctagcaatatcagcagctgg-----------

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|29674139|gb|CB670414.1|CB670414
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|38472219|gb|CF956350.1|CF956350
EST:     CAATGCCCTACAGATAGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|27576793|gb|CA999487.1|CA999487
EST:     TGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATTGTTGCGGGTGCA
genomic: TGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|58691585|gb|CK080272.1|CK080272
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|29672938|gb|CB669213.1|CB669213
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|25798315|gb|CA754276.1|CA754276
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|38472528|gb|CF956660.1|CF956660
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGGCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|58661735|gb|CK050415.1|CK050415
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|58589569|gb|CF987877.1|CF987877
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAACAGTTGATCGTTGCGGGTGC
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAA-AGTTGATCGTTGCGGGTGC
EST: gi|29629705|gb|CB634714.1|CB634714
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAACCGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|84117692|gb|CD285458.1|CD285458
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|38471655|gb|CF955786.1|CF955786
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|33800499|gb|CF326119.1|CF326119
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|29681405|gb|CB677680.1|CB677680
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|29681406|gb|CB677681.1|CB677681
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|58689542|gb|CK078229.1|CK078229
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|14571290|gb|BI118658.1|BI118658
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|58692794|gb|CK081481.1|CK081481
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|58609394|gb|CK037427.1|CK037427
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
EST: gi|29674038|gb|CB670313.1|CB670313
EST:     CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG                         ATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA
genomic: CAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAGgtgcaatgtc ... ttctgcacagATGGAGAAAAGTGCCGTTCTTTTTAGGCCAAAGTTGATCGTTGCGGGTGCA