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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaatttttagccaactaactattagctctagtgcatttcaaacacccacttagtccctttttgcttattgtgtgctttctgactcaaactgttgactagATTGCAGCAGCAGTGAATTTGGGAGCTTGAAGCATTCATCTGAGACATGGAAAAAGTGATCTGCTGGGCATATCTCCTTCAACGCAAGCAGTTCTCGAAA

Basic information

species Zea mays
transcript GRMZM2G108829_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G108829_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g47220.1 (Oryza sativa), 3'ss of exon 1
gcaatttttagccaactaactattagctctagtgc-atttcaaacacccacttagtccctttttgct-tattgtgtgctttctgactcaaa-ctgttg-actagATTGCAGCAGCAGTGAATTTGGGAGCTTGAAGCATTCATCTGAGACATGGAAAAAGTGATCTGCTGGGCATATCTCCTTCAACGCAAGCAGTTCTCGAAA
     || ||| ||  |  |   || || ||||   |       |||  |  || |    |||  || | || | || ||||||||| ||| |||||  | ||||||| | |||| |||| || |||||||| |||  || ||| ||||||||||||||||||||| ||||||| |||||||| || ||||||  ||      |
---ccttctagtcactttgcatgtacctatagtttgaacatgtgcacggaagtaatgatctttgactgtgttatatg-tttctgacttaaatctgttatattagATTGGACCAGCTGTGATTTGGGGAGCTTAAAGTTTTGATCAGAGACATGGAAAAAGTGATCTTCTGGGCACATCTCCTTAAATGCAAGCTTTTTCTTTCA
















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|60347282|gb|DN214255.1|DN214255
EST:     TGGGGAGGCGACGACACCACCCTATGCTCTGTCCTCGCCCGCAGGGTAAG                         ATTGCAGCAGCAGTGAATTTGGGAGCTTGAAGCATTCATCTGAGACATGGA
genomic: TGGGGAGGCGACGACACCACCCTATGCTCTGTCCTCGCCCGCAGGGTAAGgtatgggatc ... tgttgactagATTGCAGCAGCAGTGAATTTGGGAGCTTGAAGCATTCATCTGAGACATGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccacttagtccctttttgcttattgtgtgctttctgactcaaactgttgactagATTGCAGCAGCAGTGAATTTGGGAGCTTGAAGCATTCATCTGAGACATGGAAAAAGTGATCTGCTGGGCATATCTCCTTCAACGCAAGCAGTTCTCGAAA
                                ttctgac  putative branch site (score: 2)
                    ttattgt  TA-rich tract