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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgctgcttgatcttgttttctagattctatgtttaataaacacaatccatacactatttgtatgttttgacgaacccaccattcaaattttttgattagGTTCGTGGTTTCCTTCTCAACTTTGGCGTGTACTATGCTACTAGGGCTGCACTAGGTCTTACATTCCAATGGAG

Basic information

species Zea mays
transcript GRMZM2G113476_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G113476_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g38850.1 (Oryza sativa), 3'ss of exon 4
atgctgcttgatcttgttttctagat----tctatgtttaataaacacaatccatacac-tatttgtatgttttgacgaacccaccattcaaattttttgattagGTTCGTGGTTTCCTTCTCAACTTTGGCGTGTACTATGCTACTAGGGCTGCACTAGGTCTTACATTCCAATGGAG
 |||    |||| ||| || |||  |    | ||| ||| |  |   || ||  || |  ||| | ||| ||||||| |||||||||||||| ||||   ||||||| |||||||| |||||||||||||| ||||||||||||||||| || ||||| ||||||||||||||||||||
-tgc-atatgattttgattactaactcatatttatttttcaatatttcattcattatatatatatatatattttgacaaacccaccattcaattttt---attagGTCCGTGGTTTTCTTCTCAACTTTGGTGTGTACTATGCTACTAGAGCAGCACTGGGTCTTACATTCCAATGGAG
















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|76922521|gb|DV169042.1|DV169042
EST:     CATTCAGACTGAAGAGATATCCGGTTGCTGCTTTTCTTATCATTGCAACG                         GTTCGTGGTTTCCTTCTCAACTTTGGCGTGTACTATGCTACTAGGGCTGCA
genomic: CATTCAGACTGAAGAGATATCCGGTTGCTGCTTTTCTTATCATTGCAACGgtgctttgct ... ttttgattagGTTCGTGGTTTCCTTCTCAACTTTGGCGTGTACTATGCTACTAGGGCTGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atccatacactatttgtatgttttgacgaacccaccattcaaattttttgattagGTTCGTGGTTTCCTTCTCAACTTTGGCGTGTACTATGCTACTAGGGCTGCACTAGGTCTTACATTCCAATGGAG
                    ttttgac  putative branch site (score: 3)
                                           tttttt  putative PPT
                                    attcaaattttttgat  TA-rich tract