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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtacattttgtaatgcatctctctgctttatgtgttcatgtagatcagtacagaaaatgatttcattattttgactccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACT

Basic information

species Zea mays
transcript GRMZM2G376727_T05
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G376727_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g01307.2 (Oryza sativa), 3'ss of exon 2
gtgagtacattttgtaatgcatctctctgctttatgtgttcatgtagatcagtacagaaaatgatttcattattttgactccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACT
|||||| |||||  |   ||||||||||||| | ||  |   | ||      ||||| |||||| || ||  || |  || ||  ||||||| ||||||| | ||  ||| |||| |||||||||||  |||||||||||| || |||||||| ||  ||||||| || ||||||||||||||| ||
gtgagtgcatttcatgcagcatctctctgctatgtgattcattataaggtgttacaggaaatgactttatctttgttgcttct--agTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAGGTTTCAAGGTTCACCTGCGGTTATTACCTATCGTGTTCCCACAAAGGCT
















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|15590113|gb|BI674729.1|BI674729
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
EST: gi|211354951|gb|FL243591.1|FL243591
EST:     TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCC                         TGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG
genomic: TTTGAGCTTGTCACTGGAGAGAAATCGAAGACATTGGAAAGGCTTGACCCgtgagtacat ... actccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtgttcatgtagatcagtacagaaaatgatttcattattttgactccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACT
                                        ttttgac  putative branch site (score: 3)
                                              ctccttc  CT-rich tract
                       agaaaatgatttcatt  TA-rich tract