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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctagagggactatatgacatgatttcatctgaatcagcagctcagttttacttatgtgtgcgccatattgcactgataatagcatgacttggttgtgcagAGAATCTGTTGGTTAGCAAAGGTGTCATAAAGCTAGCAGACTTTGGTCTTGCAAGGGAAGTCTCATCATTGCCACCATATACAGAATATGTCTCAACTCG

Basic information

species Zea mays
transcript GRMZM2G178822_T03
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G178822_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os02g47220.3 (Oryza sativa), 3'ss of exon 3
ctagagggacta--tatgacatgatttcatctgaatcagcagctcagttttacttatgtgtgcgccatattgcactgataatagcatgact-tggttgtgcagAGAATCTGTTGGTTAGCAAAGGTGTCATAAAGCTAGCAGACTTTGGTCTTGCAAGGGAAGTCTCATCATTGCCACCATATACAGAATATGTCTCAACTCG
||      |||      || ||  ||||   | |||    |  |   | |    | ||| |    | ||| ||  ||  | ||  || ||| |  |  |||||||||||||||||||||||||| |||||||||||| || |||||||||||||||||||||||  ||||  |||||||||| ||||||||||| ||||||||
ctttgcaaactgaccgagatatactttctaataaatatatactttcatgtgggat-tgtattgtgcttatagctatggcacta--atcactgtactaatgcagAGAATCTGTTGGTTAGCAAAGATGTCATAAAGCTGGCGGACTTTGGTCTTGCAAGGGAAGTTACATCCGTGCCACCATACACAGAATATGTGTCAACTCG
















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|60345317|gb|DN212290.1|DN212290
EST:     TCTTGCATACATGCACCAGAGGGGCTACTTTCATCGTGACCTCAAACCTG                         AGAATCTGTTGGTTAGCAAAGGTGTCATAAAGCTAGCAGACTTTGGTCTTG
genomic: TCTTGCATACATGCACCAGAGGGGCTACTTTCATCGTGACCTCAAACCTGgtaggatctc ... ggttgtgcagAGAATCTGTTGGTTAGCAAAGGTGTCATAAAGCTAGCAGACTTTGGTCTTG
EST: gi|31361016|gb|CD445373.1|CD445373
EST:     ATCGTGACCTCAAACCTG                         AGAATCTGTTGGTTAGCAAAGGTGTCATAAAGCTAGCAGACTTTGGTCTTG
genomic: ATCGTGACCTCAAACCTGgtaggatctc ... ggttgtgcagAGAATCTGTTGGTTAGCAAAGGTGTCATAAAGCTAGCAGACTTTGGTCTTG
EST: gi|60352824|gb|DN219797.1|DN219797
EST:     TCTTGCATACATGCACCAGAGGGGCTACTTTCATCGTGACCTCAAACCTG                         AGAATCTGTTGGTTAGCAAAGGTGTCATAAAGCTAGCAGACTTTGGTCTTG
genomic: TCTTGCATACATGCACCAGAGGGGCTACTTTCATCGTGACCTCAAACCTGgtaggatctc ... ggttgtgcagAGAATCTGTTGGTTAGCAAAGGTGTCATAAAGCTAGCAGACTTTGGTCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttacttatgtgtgcgccatattgcactgataatagcatgacttggttgtgcagAGAATCTGTTGGTTAGCAAAGGTGTCATAAAGCTAGCAGACTTTGGTCTTGCAAGGGAAGTCTCATCATTGCCACCATATACAGAATATGTCTCAACTCG
                         cactgat  putative branch site (score: 3)
                            tgataata  TA-rich tract