Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccttaatagatgtcgtgagaagacaaatcacaaatacagccaaaataaatttaatgtgtgcgctatcctgccagctcattttactttgcattcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGGCTCGTACCTGGTTCGAACTGCCTGCCTTTGGCTCTGCCTGAGGCGAAAT

Basic information

species Zea mays
transcript GRMZM2G147884_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 10
ccttaatagatgtcgtgagaagacaaatcacaa-atacagccaaaataaatttaatgtgt-gcgctatcctgccagctcattttactttgcattcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGGCTCGTACCTGGTTCGAACTGCCTGCCTTTGGCTCTGCCTGAGGCGAAAT
      ||  | ||     ||   | || |     |   |    |    ||   |  |   |  || || | ||  |  |   |  ||  ||| |   ||||||| | |||||| |  |||| ||||| || ||||||||||| |||||||||||||| |||||||| |||||  ||||  ||||||| || ||||| || |
-aactctaactctcagagtaaagaacattattttgtgttgtggcagctgatcatacataccgatctttctttcctacctaacattgttgacat-ctgatcagGTAAGGAACACAAGGGCTGTTAATCGTACTGGGCAGCCAACCGGCTACAGGCTCGTGCCTGGTTCAAACTGTTTGCCGCTGGCTCTACCCGAGGCAAAGT
















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|32919574|gb|CF024386.1|CF024386
EST:     AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|211381837|gb|FL377365.1|FL377365
EST:     AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|211506668|gb|FL391689.1|FL391689
EST:     AGTTGCAAGCAATGCGTGATTGCNACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|211134086|gb|FL422141.1|FL422141
EST:     AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|50326819|gb|CO521945.1|CO521945
EST:     AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|60342955|gb|DN209928.1|DN209928
EST:     AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|67025362|gb|CO454111.1|CO454111
EST:     AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|60353904|gb|DN220877.1|DN220877
EST:     AATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|50326829|gb|CO521955.1|CO521955
EST:     AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|211466963|gb|FL423374.1|FL423374
EST:     AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|31348944|gb|CD433301.1|CD433301
EST:     AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|21621426|gb|BQ619432.1|BQ619432
EST:     AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: AGTTGCAAGCAATGCGTGATTGCGACCCTTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
EST: gi|78022408|gb|DV490795.1|DV490795
EST:     TTCATCTGCCCGCCACTGGATT                         GTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG
genomic: TTCATCTGCCCGCCACTGGATTgtaagagctg ... ttcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaatttaatgtgtgcgctatcctgccagctcattttactttgcattcctttcagGTACGCAACACACGAACTGTGAATCGGACGGGGCAGCCAACTGGCTACAGGCTCGTACCTGGTTCGAACTGCCTGCCTTTGGCTCTGCCTGAGGCGAAAT
   atttaat  putative branch site (score: 4)
                                      ctttgcattcctttc  putative PPT
                                attttacttt  TA-rich tract