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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCTATAATTGCTAGTGTGAGCGAACACCAACCACCAACCTGGCCTTCTTATTTTATGGATATCAATGTGCTTGCCTTTTTAGTTCCTGCTGGGATCGTAgtaagtatttcatttctttagatgaacaagcagtttagctagttagttttaccatgtttttgacttttgagtgattgtcattaactcaattttcag

Basic information

species Zea mays
transcript GRMZM2G154165_T03
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G154165_T03 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA01G01270.1 (Glycine max), 5'ss of exon 13
CCCTATAATTGCTAGTGTGAGCGAACACCAACCACCAACCTGGCCTTCTTATTTTATGGATATCAATGTGCTTGCCTTTTTAGTTCCTGCTGGGATCGTAgtaagtatttcatttctttagatgaacaagcagtttagctagttagttttaccatgtttttgactt-ttgagtgattgtcattaactcaattttcag
 || || ||||||||||| || || || || ||||| || |||||||| || |||||||||||||||||  | || ||  | ||||| ||||| ||  | || |||     |||| ||   || || ||  || ||||||  ||  | ||  ||| || |  |     | | |  | |   |     |    |  ||
ACCAATCATTGCTAGTGTTAGTGAGCATCAGCCACCTACTTGGCCTTCATACTTTATGGATATCAATGTCTTGGCATTCCTCGTTCCAGCTGGCATTATTgtgagt----tattttttattataaagaataagattagctgttttttcttgtcatattctatataaactaaattgtggcggtgcttacctactgtag

upper sequence: GRMZM2G154165_T03 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA16G08410.1 (Glycine max), 5'ss of exon 13
CCCTATAATTGCTAGTGTGAGCGAACACCAACCACCAACCTGGCCTTCTTATTTTATGGATATCAATGTGCTTGCCTTTTTAGTTCCTGCTGGGATCGTAgtaagtatttcatttctttagatgaacaagcagtttagctagttagttttaccatgtttttgactt-ttgagtgattgtcattaactcaattttcag
 || || ||||||||||| || || || || ||||| || |||||||| || |||||||||||||||||  | || ||  | ||||| ||||| ||  | || |||     |||| |    || || |   || |||  |  ||  | ||  ||| || |  |     | | |  | |   |     |    |  ||
ACCGATCATTGCTAGTGTTAGTGAGCATCAGCCACCTACTTGGCCTTCATACTTTATGGATATCAATGTCTTGGCATTCCTGGTTCCAGCTGGCATTATTgtgagt----tatttttaattataaagattaagattatttgttttatcttgtcatattctacataaactaaatcgtggcagtgcttacctactgtag

upper sequence: GRMZM2G154165_T03 (Zea mays), 5'ss of exon 11
lower sequence: AT5G19690.1 (Arabidopsis thaliana), 5'ss of exon 13
CCCTATAATTGCTAGTGTGAGCGAACACCAACCACCAACCTGGCCTTCTTATTTTATGGATATCAATGTGCTTGCCTTTTTAGTTCCTGCTGGGATCGTAgtaagtatttcatttctttagatgaacaagcagtttagctagttagttttaccatgtttttgacttttgagtgattgtcattaactcaattttcag-------------
 || || ||||| ||||| || ||||| ||||| ||||| ||||| |||||||| ||||||||||||||  | || || || || |||||||| ||| | || |||      ||  ||    | |  ||  || ||   |  | | |   |   | | |     | ||  ||| |  |  ||  |||  || | |              
TCCAATTATTGCAAGTGTCAGTGAACATCAACCTCCAACTTGGCCATCTTATTTCATGGATATCAATGTTTTGGCTTTCTTGGTCCCTGCTGGCATCATTgtgagttaaattttgattgtagttactaattagattttgtgctgaataacattttttgtccatatattttgtgttgattctttcctcttttcttatcttctgttggtag

upper sequence: GRMZM2G154165_T03 (Zea mays), 5'ss of exon 11
lower sequence: PP1S404_37V6.1 (Physcomitrella patens), 5'ss of exon 13
CCCTATAATTGCTAGTGTGAGCGAACACCAACCACCAACCTGGCCTTCTTATTTTATGGATATCAATGTGCTTGCCTTTTTAGTTCCTGCTGGGATCGTAgtaagtatttcatt----tctttagatgaacaagcagtttagctagttagttttacca-tgtttttgacttttgagtgattgtcattaactcaattttcag------------------------------------------------------------------------------------
||| || ||||||||||| ||||| || || ||||| ||||||||||| ||||| ||||| |||||  |  | |||||  ||| ||| ||||| ||| | ||||| | || | |    |  || | | ||| |    |||    |      | | | |    | | ||  ||||||   |     |||| ||   ||| ||                                                                                    
CCCAATCATTGCTAGTGTTAGCGAGCATCAGCCACCCACCTGGCCTTCGTATTTCATGGACATCAACATTTTGGCCTTCCTAGCTCCAGCTGGTATCATCgtaaggactttactggtcttgttcgcttaacgaatcttttgatgatccgcctcttctaacactgtggaagtttgaggcgtgcagtttaattc---tttaaggacacctaatgtattgtgtcaggtttggtcacgtgatagcttggttttaaatcgattctaacacttcaccttcggaacctgcag

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|19351651|gb|BM896183.1|BM896183
EST:     ATTTTATGGATATCAATGTGCTTGCCTTTTTAGTTCCTGCTGGGATCGTA                         TCATGCTTCTTACCATTATCTGATGCAAGCTCATTTTTGGTCCTGTACTTG
genomic: ATTTTATGGATATCAATGTGCTTGCCTTTTTAGTTCCTGCTGGGATCGTAgtaagtattt ... caattttcagTCATGCTTCTTACCATTATCTGATGCAAGCTCATTTTTGGTCCTGTACTTG