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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctgctaaactttctacctgtttttttcctgctctattgagctttgatgccaatggttgttgtacagGCAGCTTGCAATATACACTGGTCCAACAG

Basic information

species Zea mays
transcript GRMZM2G040017_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G040017_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g55940.1 (Oryza sativa), 3'ss of exon 3
gtaagctgctaaactttctacctgtttttttcctgctctattgagctttgatgccaatggttgttgtacagGCAGCTTGCAATATACACTGGTCCAACAG
|| || |  | |||| |  |||| ||||||||   |  ||||  | ||| |    ||    |||| ||||||||||| ||||||||||||||||||||||
gtgagttagtgaactctagacctatttttttctgaccttatttcg-tttaacctaaactactgttctacagGCAGCTCGCAATATACACTGGTCCAACAG
















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|148972712|gb|EE023672.2|EE023672
EST:     AGCATGCTAGGAATAACACCTTTAGCTGAGCGTTTAGGATATGCAACTGA                         GCAGCTTGCAATATACACTGGTCCAACAG
genomic: AGCATGCTAGGAATAACACCTTTAGCTGAGCGTTTAGGATATGCAACTGAgtaagctgct ... tgttgtacagGCAGCTTGCAATATACACTGGTCCAACAG
EST: gi|60339318|gb|DN206291.1|DN206291
EST:     CATGCTAGGAATAACACCTTTAGCTGAGCGTTTAGGATATGCAACTGA                         GCAGCTTGCAATATACACTGGTCCAACAG
genomic: CATGCTAGGAATAACACCTTTAGCTGAGCGTTTAGGATATGCAACTGAgtaagctgct ... tgttgtacagGCAGCTTGCAATATACACTGGTCCAACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctacctgtttttttcctgctctattgagctttgatgccaatggttgttgtacagGCAGCTTGCAATATACACTGGTCCAACAG
                             ctttgat  putative branch site (score: 5)
      tgttttttt  TA-rich tract