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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtttgttagttccttgctttctcgttcaactttagttgatcgcgtgcaccgtctcagtttttatcagctgtgatgctcttgtgcctcttccagGTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCACAACATTGCTTGGTGAACATGAGGGAAGGGCTCACAATTTGGCTATAGAGCCTGGTAGTC

Basic information

species Zea mays
transcript GRMZM2G123709_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G123709_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g39760.1 (Oryza sativa), 3'ss of exon 2
gttggtttgttagttccttgctttctcgttcaactttagttgatcgcgtgcaccgtctcagtttttatcagctgtgatgctcttgtgcctcttccagGTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCACAACATTGCTTGGTGAACATGAGGGAAGGGCTCACAATTTGGCTATAGAGCCTGGTAGTC
    |||  |       |||  || |  ||  |  ||  |||||         | | | || | || |||| ||| ||  | |  | |  |   |||||||| ||||||||||||  ||||| |||||| ||  | || |||||||| || || ||||| |||||||||||||| ||||| || |||||||| ||||
----gttaatggacgtattgtgttgt--tttgatctt--ttgat-ataaattacattttagatatt-tcagatgtaatcatgtgttactgcaaacagGTGAGACTTGCCAAGATAGGGGATGGTGGAGATGTACCTACTACATTGCTAGGCGATCATGATGGAAGGGCTCACAAGTTGGCCATTGAGCCTGGCAGTC
















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|211520963|gb|FL270268.1|FL270268
EST:     TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAG                         GTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCACAA
genomic: TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAGgttggtttgt ... cctcttccagGTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCACAA
EST: gi|211523959|gb|FL270276.1|FL270276
EST:     TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAG                         GTGAG-CTTGCCAA
genomic: TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAGgttggtttgt ... cctcttccagGTGAGGCTTGCCAA
EST: gi|211520964|gb|FL270269.1|FL270269
EST:     TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAG                         GTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCACAACATTGCTT
genomic: TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAGgttggtttgt ... cctcttccagGTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCACAACATTGCTT
EST: gi|211523956|gb|FL270273.1|FL270273
EST:     TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAG                         GTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCACAACATTGCTT
genomic: TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAGgttggtttgt ... cctcttccagGTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCACAACATTGCTT
EST: gi|211523955|gb|FL270272.1|FL270272
EST:     TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAG                         GTGAGGCTTGCCMAGATACAGGATGCTGGAGACGTGT
genomic: TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAGgttggtttgt ... cctcttccagGTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGT
EST: gi|28909535|gb|CB330979.1|CB330979
EST:     TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAG                         GTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCACAACATTGCTT
genomic: TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAGgttggtttgt ... cctcttccagGTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCACAACATTGCTT
EST: gi|211523957|gb|FL270274.1|FL270274
EST:     TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAG                         GTGAGGCTTGC-AAGATAC
genomic: TGCCCTGCTCAGACGATCGGACCATTGTCACTTGTGCTGCTGATGGCGAGgttggtttgt ... cctcttccagGTGAGGCTTGCCAAGATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcgcgtgcaccgtctcagtttttatcagctgtgatgctcttgtgcctcttccagGTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCACAACATTGCTTGGTGAACATGAGGGAAGGGCTCACAATTTGGCTATAGAGCCTGGTAGTC
 agttgat  putative branch site (score: 5)
                                     ctcttgtgcctcttcc  putative PPT
                 agtttttat  TA-rich tract