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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtgaaattatcgcagataagatatgtttataactggcattaaaaggtctagtttcgtaacatttgatgttttgctaacctctgctgccctgtgtttcagTTCATCCAGTTGCGTTTGGACCCAGCTAGCAGCAGCACTCTTCCTGCCAGTGGAAATGTGTCAGTCACACAAAGCCTCAGTGTCACTAACAACCAACATG

Basic information

species Zea mays
transcript GRMZM2G017421_T01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017421_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os06g07090.2 (Oryza sativa), 3'ss of exon 17
ggtgaaattatcgcagataagatatgtttataactggcattaaaaggtctagt---ttcgtaacatttgatgttttg--ctaacctctgctgc-cctgtgtttcagTTCATCCAGTTGCGTTTGGACCCAGCTAGCAGCAGCACTCTTCCTGCCAGTGGAAATGTGTCAGTCACACAAAGCCTCAGTGTCACTAACAACCAACATG
     ||||  |     | ||||  |||| ||  | || |||  || | |      | |  || | | || | ||     | |  |||||||    ||  |||||||| |||||||||||||||||||| |||||||||| ||| |||||||||||||||||||  || || |||||||||||||||||||| || ||||||||||
-----aatt-ccatcattcagatgagtttgtagtttgctttagtagttgtgaaacatacaaaatactcgaggcttatatttcatttctgctgaatttggatttcagTTTATCCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGTGGAAATGATTCTGTTACACAAAGCCTCAGTGTCACAAATAACCAACATG
















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|211540672|gb|FL444168.1|FL444168
EST:     TAGCAACTACTGCATTAACAGATTTCGTCTTCCAGGCAGCCGTGCCAAAG                         TTCATCCAGTTGCGTTTGGACCCAGCTAGCAGCAGCACTCTTCCTGCCAGT
genomic: TAGCAACTACTGCATTAACAGATTTCGTCTTCCAGGCAGCCGTGCCAAAGgtagcaatcg ... tgtgtttcagTTCATCCAGTTGCGTTTGGACCCAGCTAGCAGCAGCACTCTTCCTGCCAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtctagtttcgtaacatttgatgttttgctaacctctgctgccctgtgtttcagTTCATCCAGTTGCGTTTGGACCCAGCTAGCAGCAGCACTCTTCCTGCCAGTGGAAATGTGTCAGTCACACAAAGCCTCAGTGTCACTAACAACCAACATG
                           tgctaac  putative branch site (score: 1)
                                       ctgccct  putative PPT
            taacattt  TA-rich tract