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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattcaaattatcttatggtaatcttgctaaatctgttgtcatttgttctgtgctctactgctctgacctaaaagctgaattgttgaattacagATTCTAGTAGCTACTCCTGGAAGGCTTAGGGATCACATGGAGAACACTCCAGGGTTTGCTACAAGGTTGTTGGGTGTCAAAGTTCTAATTCTTGATGAAG

Basic information

species Zea mays
transcript GRMZM2G041732_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G041732_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g33520.1 (Oryza sativa), 3'ss of exon 4
gtgattcaaattatcttatggtaatcttgctaaatctgttgtcatttgttctgtgctctactgctctgacctaaaagctgaattgttgaattacagATTCTAGTAGCTACTCCTGGAAGGCTTAGGGATCACATGGAGAACACTCCAGGGTTTGCTACAAGGTTGTTGGGTGTCAAAGTTCTAATTCTTGATGAAG
||||||  || || ||||  | |||  | ||  || | |   ||||||   ||||           |||  |||||       || |||  | ||||||||||||||||| || |||||||||| |||||| |||||||||||||||||||||||||| || ||| ||||||||||||| || |||||||||||||
gtgattggaagtaacttactg-aattatcctggatatttctacatttggattgtg-----------tgatgtaaaaat---gctgctgatgtgcagATTCTAGTAGCTACACCAGGAAGGCTTAAGGATCATATGGAGAACACTCCAGGGTTTGCTACTAGATTGATGGGTGTCAAAGTCCTTATTCTTGATGAAG
















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|32943805|gb|CF048624.1|CF048624
EST:     GCACTAGAATGGCACTTGAACAGAAGCGCATGCACACTAACCCTTGCCAG                         ATTCTAGTAGCTACTCCTGGAAGGCTTAGGGATCACATGGAGAACACTCCA
genomic: GCACTAGAATGGCACTTGAACAGAAGCGCATGCACACTAACCCTTGCCAGgtgattcaaa ... tgaattacagATTCTAGTAGCTACTCCTGGAAGGCTTAGGGATCACATGGAGAACACTCCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatttgttctgtgctctactgctctgacctaaaagctgaattgttgaattacagATTCTAGTAGCTACTCCTGGAAGGCTTAGGGATCACATGGAGAACACTCCAGGGTTTGCTACAAGGTTGTTGGGTGTCAAAGTTCTAATTCTTGATGAAG
                           acctaaa  putative branch site (score: 3)
                                            ttgaatta  TA-rich tract