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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttactggtagaggcacgtgcaccctcaacattcaattctttataagcttattatattttaatatagaattattctgttttagATCTCTACCCAGAATGAAGACTATCTGATAGACACAATAGCACTGCACGATGTGATGGGCATTCTACGACCAGTGTTTGCCAATTCTTCTATCTGTAAG

Basic information

species Zea mays
transcript GRMZM2G048819_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G048819_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g32890.1 (Oryza sativa), 3'ss of exon 2
gtaatttactggtagaggcacgtgcaccctcaacattcaattctttataagcttattat-attttaatatagaattattctgttttagATCTCTACCCAGAATGAAGACTATCTGATAGACACAATAGCACTGCACGATGTGATGGGCATTCTACGACCAGTGTTTGCCAATTCTTCTATCTGTAAG
     | |||||| | ||    | |   || |    ||  ||  ||||  || | |||  ||| | | ||| || |||  | |||||||||||||||||||| | ||| ||| | |||||||||||||| ||||| || |||||| |||||||||||||||| ||||||||| |||| |||||||||
----gtaactggtggtgg---ataccttcttattgctctgttgcttattggcctgttaagattatgacatataaatatcat-ttttagATCTCTACCCAGAAGGCAGATTATTTAATAGACACAATAGCGCTGCATGACGTGATGAGCATTCTACGACCAGTTTTTGCCAATCCTTCAATCTGTAAG
















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|211295867|gb|FL347280.1|FL347280
EST:     CAGAGCAACATAGCATTCGATCTTTCCTAGGATATACTGCACTAATGCAG                         ATCTCTACCCAGAATGAA
genomic: CAGAGCAACATAGCATTCGATCTTTCCTAGGATATACTGCACTAATGCAGgtaatttact ... tctgttttagATCTCTACCCAGAATGAA
EST: gi|78075397|gb|DV503831.1|DV503831
EST:     CAGAGCAACATAGCATTCGATCTTTCCTAGGATATACTGCACTAATGCAG                         G
genomic: CAGAGCAACATAGCATTCGATCTTTCCTAGGATATACTGCACTAATGCAGgtaatttact ... tctgttttag-
EST: gi|78075397|gb|DV503831.1|DV503831
EST:     CAGAGCAACATAGCATTCGATCTTTCCTAGGATATACTGCACTAATGCAG                         G
genomic: CAGAGCAACATAGCATTCGATCTTTCCTAGGATATACTGCACTAATGCAGgtaatttact ... tctgttttag-
EST: gi|78075397|gb|DV503831.1|DV503831
EST:     CAGAGCAACATAGCATTCGATCTTTCCTAGGATATACTGCACTAATGCAG                         G
genomic: CAGAGCAACATAGCATTCGATCTTTCCTAGGATATACTGCACTAATGCAGgtaatttact ... tctgttttag-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acattcaattctttataagcttattatattttaatatagaattattctgttttagATCTCTACCCAGAATGAAGACTATCTGATAGACACAATAGCACTGCACGATGTGATGGGCATTCTACGACCAGTGTTTGCCAATTCTTCTATCTGTAAG
                            ttttaat  putative branch site (score: 3)
                                            ttctgtttt  putative PPT
      aattctttataagctt  TA-rich tract