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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtcttacttatcaccagtgttattaaaaactacatttaaacgtgacaaccatgtatatcggttagtctcttatcagttatcacatactaacgtgtataggcaaagcatgacaacgcatagatgtagtttgatctgctgtagttgaccatgatgtgtcgtaacaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATGGACTCTCCAACGTGAGGGACATCCAGGCACATAATTTTCTGTCTAAGGA

Basic information

species Zea mays
transcript GRMZM5G848768_T04
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G848768_T04 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os02g57260.1 (Oryza sativa), 3'ss of exon 13
gttagtcttacttatcaccagtgttattaaaaactacatttaaacgtgacaaccatgtatatcggttagtctcttatcagttatcacatactaacgtgtataggcaaagcatgacaacgcatagatgtagtttgatctgctgtagttgaccatgatgtgtcgtaacaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATGGACTCTCCAACGTGAGGGACATCCAGGCACATAATTTTCTGTCTAAGGA
                                             ||||   |  | | | | | ||  ||| |   |||            || |  |  | | |   |  |       |      |    |  | ||   ||||     |  |||  | | |    | ||||||||||| |||||||||||||||||||| |||||||| ||| |||| ||   | |||| |||||| |  ||    ||   ||   || |  |   || | 
---------------------------------------------gtgagttctttttctctggatttctctgtgtgcaggag---------aatgcatgcaagtagccctcgttgttaaacttccatgacatcttgtgtactagtatgtaactatgcat-gaattggttgcagGATCTGGCATGGGGGCAGCAGCTGTGTTTGAGCGGGGTGACTCGGTCGACCAATTCTCAAACGTGCGCCACCATTAGCGGCAGTTTTCTAAGAGAAATGC
















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|18650311|gb|BM499130.1|BM499130
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACG
EST: gi|111195424|gb|EE293559.1|EE293559
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|16927281|gb|BM080350.1|BM080350
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catagatgtagtttgatctgctgtagttgaccatgatgtgtcgtaacaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATGGACTCTCCAACGTGAGGGACATCCAGGCACATAATTTTCTGTCTAAGGA
                                        tcgtaac  putative branch site (score: 2)
                                           taacaat  TA-rich tract