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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtcttcctttattttattccatgatgtcatcttcaccattgcttatctttctcttctttttctaaataattgtttatttttgcagTCTACAGAGCTTCACATATATACAGATTTCTTGAGAATTGTTCTGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAG

Basic information

species Zea mays
transcript GRMZM2G078576_T01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G078576_T04 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os01g56630.2 (Oryza sativa), 3'ss of exon 12
gtagtcttcctttattttattccatgatgtcatcttcaccattgcttatctttctcttcttttt-ctaaataattgtttatttttgcagTCTACAGAGCTTCACATATATACAGATTTCTTGAGAATTGTTCTGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAG
                 || || |   | |   |   |       || |    | ||| ||||  ||||| |   ||||| |||||||||| ||||| |||||||| ||||| || ||||| ||||||||||| ||||| ||||||||||| ||||||||||||||||| |||||||| |||
----------------gtactcaacagtttgtgcacaatggcctttttttaacccctttttttcactaaacagcggtttacttttgcagTCCACAGAACTTCACATCTATACCGACTTCTTAAGAATTGTTCTAGAAATCATCAATGCAATTCTTACATATGCATTGCCTAGAAATCCTGAG
















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|31359099|gb|CD443456.1|CD443456
EST:     TGAAAGTTATATCTGATCAAATGGAAGCAGACAACATCGCAGATGATATG                         TCTACAGAGCTTCACATATATACAGATTTCTTGAGAA
genomic: TGAAAGTTATATCTGATCAGATGGAAGCAGACAACATCGCAGATGATATGgtagtcttcc ... atttttgcagTCTACAGAGCTTCACATATATACAGATTTCTTGAGAA
EST: gi|32793737|gb|CD945973.1|CD945973
EST:     TGAAAGTTATATCTGATCAGATGGAAGCAGACAACATCGCAGATGATATG                         TCCACAGAGCTTCACATATATACAGATTTCTTGAGAATTGTTCTGGAAATA
genomic: TGAAAGTTATATCTGATCAGATGGAAGCAGACAACATCGCAGATGATATGgtagtcttcc ... atttttgcagTCTACAGAGCTTCACATATATACAGATTTCTTGAGAATTGTTCTGGAAATA
EST: gi|7304677|gb|AW600616.1|AW600616
EST:     TGAAAGTTATATCTGATCAGATGGAAGCAGACAACATCGCAGATGATATG                         TCTACAGAGCTTCACATATATACAGATTTCTTGAGAATTGTTCTGGAAATA
genomic: TGAAAGTTATATCTGATCAGATGGAAGCAGACAACATCGCAGATGATATGgtagtcttcc ... atttttgcagTCTACAGAGCTTCACATATATACAGATTTCTTGAGAATTGTTCTGGAAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcaccattgcttatctttctcttctttttctaaataattgtttatttttgcagTCTACAGAGCTTCACATATATACAGATTTCTTGAGAATTGTTCTGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAG
                             ttctaaa  putative branch site (score: 2)
                                          tttattttt  putative PPT
                 tttctcttctttttct  TA-rich tract