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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttgagtggatgaacgctaatgcagcagaagattggaaacattaactggctatttcttgtgtggccacataatcagGACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAACCTGCCCTTTTGTACATCGTGCCCTTCACTCTTGGTAATGATGTGTGTTT

Basic information

species Zea mays
transcript GRMZM2G165351_T02
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165351_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os06g51430.1 (Oryza sativa), 3'ss of exon 12
-----------------------------------------------------------------gtaagttttgagtggatga--acgctaatgc-agcagaagattggaaacattaactggctatttcttgtgtggccacataatcagGACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAACCTGCCCTTTTGTACATCGTGCCCTTCACTCTTGGTAATGATGTGTGTTT
                                                                  |  || ||   |     |      ||| || |  |   | |  ||   ||||| | |||     || ||   |||||| |  |||||| || || |||||||| ||  ||||||| ||||| || ||||| |||||||| ||| | ||||| ||||||||||| ||||                
gtaagttacagcgctggtccacgcaactattacttgagacaaaaaaaagaggcatttatctgtgcatccgtcttatttaagctattgtattaaagctattatgtgctgtgaggaattaatttgctgaactttttgc--ccacatca--agGACTCCTTATTACATATGTCGCCTTGAACCTTATGGACGGACATGGCCAACCTGCACTTCTCTACATAGTGCCCTTCACACTTG----------------

upper sequence: GRMZM2G165351_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv02s0025g03400.t01 (Vitis vinifera), 3'ss of exon 12
------------------------------------------------------------------------------------------------------------gtaagttttgagtggatgaacgctaatgcagcagaagattggaaacat-taactggctatttcttgtgtggccacataatcagGACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAACCTGCCCTTTTGTACATCGTGCCCTTCACTCTTGGTAATGATGTGTGTTT
                                                                                                                  ||| |      || |  | ||  ||| | |  |||      | ||||     ||||   || |    |  |  | ||| ||||| ||||||||||| || |||||| |||||||||||||||| ||||| || ||  | ||||||||||| ||||| || |                
gtaaagtagcaataattgaatcaacctttttccggttaataatataccaagtatatgattcattaacaaaggatagaagattagcagctggaaatgacataatatttcccgtagttttatcactggaccctttatttagctggattttgttcttttgtaacgcctcatttaacgtattttgaactggt-agGTCTTCTCATCACATATGTGGCACTGAACTTGATGGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGG----------------

upper sequence: GRMZM2G165351_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 12
-----------------gtaa--gttttgagtggatgaacgctaatgcagcagaagattggaaacattaactggctatttcttgtgtggccacataat-cagGACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAACCTGCCCTTTTGTACATCGTGCCCTTCACTCTTGGTAATGATGTGTGTTT
                   ||  ||||  | |  || || ||||         |   ||      | || ||   ||  |  ||| |  |    |  | ||||||| || ||||||||||| ||  ||||| |||||||||||||||| ||||| || ||  | ||||| || || ||||| || |                
ggattttgcatttttatacaactgtttctattccataaatgctacaattttttat--ttatttttaatatctttttaagttgtgtttttcattcttgtgcagGACTCCTCATCACATATGTGGCCTTGAACTTGATGGATGGGCATGGCCAACCAGCTCTACTCTACATTGTTCCATTCACACTCG----------------

upper sequence: GRMZM2G165351_T02 (Zea mays), 3'ss of exon 10
lower sequence: EFJ28538 (Selaginella moellendorffii), 3'ss of exon 12
gtaagttttgagtggatgaacgctaatgcagcagaagattggaaacattaactggctatttcttgtgtggccacataatcagGACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAACCTGCCCTTTTGTACATCGTGCCCTTCACTCTTGGTAATGATGTGTGTTT
           |||      |  || | |  | |    |||  ||||  |          | |  |||||  |  |   ||||  |  |  | ||  | |||||  ||||| ||||| ||||||||||||||||||||||  | |||||||| || | |||||| |                
-----------gtgagcatccatta-tact-ctggcttttgtgaacacaa----------tgtcatgtggaaat-tgtacagGTTTGTTTCTTACGGACGTTGCATTGAACGTGATGCATGGGCATGGACAACCTGCCCTCCTCTACATCGTACCTTGCACTCTGG----------------

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|166633533|gb|EG317352.1|EG317352
EST:     GGTTACTTTTTGTGGGCAATGGTGGCCTATGGCTCTG                         GACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAAC
genomic: GGTTACTTTTTGTGGGCAATGGTGGCCTATGGCTCTGgtaagttttg ... acataatcagGACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAAC
EST: gi|32843028|gb|CD982709.1|CD982709
EST:     GGGCTTACGGTCTGGTTACTTTTTGTGGGCAATGGTGGCCTATGGCTCTG                         GACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAAC
genomic: GGGCTTACGGTCTGGTTACTTTTTGTGGGCAATGGTGGCCTATGGCTCTGgtaagttttg ... acataatcagGACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAAC
EST: gi|32848049|gb|CD987730.1|CD987730
EST:     GGGCTTACGGTCTGGTTACTTTTTGTGGGCAATGGTGGCCTATGGCTCTG                         GACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAAC
genomic: GGGCTTACGGTCTGGTTACTTTTTGTGGGCAATGGTGGCCTATGGCTCTGgtaagttttg ... acataatcagGACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcagcagaagattggaaacattaactggctatttcttgtgtggccacataatcagGACTTCTAATCACATATGTTGCGCTGAACCTGATGGATGGGCATGGACAACCTGCCCTTTTGTACATCGTGCCCTTCACTCTTGGTAATGATGTGTGTTT
                  cattaac  putative branch site (score: 2)
               aaacattaa  TA-rich tract