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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtttgtttcattggtatggtacattgagtgatgcagtttgaaattcagactctactatgcaaccttctttcctttttctcttcccttttcagagaaaatgctgactagatataaatttggtttctggatgcagGATATTCGACAGGAGTCACAGTTTCATAGGGCAACTTCTAGTAATTTCATCCGAAACCCAGATTCCAGCAACAGAG

Basic information

species Zea mays
transcript GRMZM2G438895_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G438895_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g50370.1 (Oryza sativa), 3'ss of exon 2
gtaggtttgtttcattggtatggtacattgagtgatgcagtttga--aattcagactctactatgcaaccttctttcctttttctcttcccttttcagagaaaatgctgactagatataaatttggtttctggatgcagGATATTCGACAGGAGTCACAGTTTCATAGGGCAACTTCTAGTAATTTCATCCGAAACCCAGATTCCAGCAACAGAG
||||||    || |||| |||| |||| |  ||| | | |||| |  | |||| |   || |||| ||  | ||||| ||                    | | |  |||| |  |  |||| | | |||||||||||||||| |||||||||  |||||||||| || ||   ||| ||||| || ||  |||||||||||||    | || ||
gtaggtgatgtttattgatatgatacactatgtggttctgtttaaggatttcacatagtaatatgtaa--tgctttcttt-------------------aacagtcttgacaattttgaaatattggttctggatgcagGATAATCGACAGGACACACAGTTTCAGAGAGCGGTTTCCAGTAACTTAATGAGAAACCCAGATTCATATAGCAAAG
















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|60339512|gb|DN206485.1|DN206485
EST:     CCACCAATCAG                         GATATTCGACAGGAGTCACAGTTTCATAGGGCAACTTCTAGTAATTTCATC
genomic: CCACCAATCAGgtaggtttgt ... ctggatgcagGATATTCGACAGGAGTCACAGTTTCATAGGGCAACTTCTAGTAATTTCATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttcccttttcagagaaaatgctgactagatataaatttggtttctggatgcagGATATTCGACAGGAGTCACAGTTTCATAGGGCAACTTCTAGTAATTTCATCCGAAACCCAGATTCCAGCAACAGAG
                    tgctgac  putative branch site (score: 2)
                                          tttct  putative PPT
                         actagatataaattt  TA-rich tract