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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttgtcgaatgttgatgattatgttgtcgaatgttgatgattatgcgccattctatgtcactaagaattgttacctatgtggcacatttgtggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGATGACCAATCCCCATATTGGTAACACTGGCGTTAATCCTG

Basic information

species Zea mays
transcript GRMZM2G147450_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147450_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g47850.3 (Oryza sativa), 3'ss of exon 3
-----------------------------------------------------------------acttgtcga-atgttgatgatta-tgttgtcgaat-gttgatgattatgcgccattctatgtcactaagaattgttacctatgtggcacatttgtggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGATGACCAATCCCCATATTGGTAACACTGGCGTTAATCCTG
                                                                  |||   || |     |  | ||   |  || ||| |||||       |  |   |   || ||  | |||     ||  |  |    ||  || || ||||| ||||| ||||||||||| ||||||||||||||||||||||||||||| |||||||| || |||||||| |||||||| ||||||||||
gtaaatcaactaaccgtttgagtgatggcatttgtttcctgttgtggttgagatgtgcttattgttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaaca--actaacctcat-caaatg-ggctgcagGTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTG

upper sequence: GRMZM2G147450_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G15510.3 (Glycine max), 3'ss of exon 2
------acttgtcgaatgttgatgattatgttgtcgaatgttgatgattatgcgc-cattctatgtcactaagaattgttacctat-gtggcacatttgtggttg-cagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGATGACCAATCCCCATATTGGTAACACTGGCGTTAATCCTG
      |      |||| |||       |||| |      ||  || || |||   ||| |||  | | |      | ||   | | |||     | |||| ||  ||| ||||| || |||||||||||||| || |||||||| || ||||| || ||||| ||||| |||||||| ||||||||| | |||  ||
gtgaggatactatgaatcttgggatgcgtgttctt-----tttttggttttgcttgcatgctaaatgagtggttggttttctttgttgtgttgtgtgtgtgattctcagGTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG

upper sequence: GRMZM2G147450_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G32190.1 (Glycine max), 3'ss of exon 2
acttgtcgaatgttgatgattatgttgtcgaatgttgatg-attatgcgccattctatgtcactaagaattgttacctatgtggca-catttgt-ggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGATGACCAATCCCCATATTGGTAACACTGGCGTTAATCCTG
    |  |||  |   |   ||| |   |     || ||  | | || ||     |||  |  |      | ||   ||| |   |  || |||    ||||| ||||| || ||| | |||||||| || ||||||||||| ||||| |||||||| ||||| ||||||||||||||||| || |||  ||
gtgagatgaac-taactttatatataaaccggcattcattcaatctgagcatggatataccgatgtttcat-ttgtttatttaataatatctgttaactgcagGTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGATGACAAATCCACATATTGGTAACACTGGTGTAAATTTTG

upper sequence: GRMZM2G147450_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0044g00550.t01 (Vitis vinifera), 3'ss of exon 2
-----------acttgtcgaatgttgatgattatgttgtcgaatgttgatgattatgcgccattctatgtcactaagaattgttacctatgtggcacatttgtggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGATGACCAATCCCCATATTGGTAACACTGGCGTTAATCCTG
           |  ||   | |    ||||     |||  ||  |||||| ||| ||   |||  |   |   |   | ||| ||  |   || || |       |||||| |||||||| ||| | ||||| || || ||||||||||| || ||| | ||||| ||||| |||||||| ||||| || || |||  ||
tggctctgcttatctgcaaagttaaaatgacctgattgagga--gttgat-attttgt-tcatgatccatatatggaagttgatatgtggttgtcata-------ttgcagATATCAGGAAATTCTTACAGACCCTAGTTATGCTGGTCAGTTCGTCTTAATGACAAATCCACATATTGGCAACACGGGGGTAAATTTTG

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|89252056|gb|DY623842.1|DY623842
EST:     GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGG                         CTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT
genomic: GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagtcatt ... gtggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT
EST: gi|148945107|gb|EC890301.2|EC890301
EST:     GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGG                         CTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT
genomic: GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagtcatt ... gtggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT
EST: gi|148934462|gb|EC878501.2|EC878501
EST:     GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGG                         CTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT
genomic: GCATCAGGAACACAAGTCGGTGAAGTTGTTTTCAACACATCACTGACAGGgtaagtcatt ... gtggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgccattctatgtcactaagaattgttacctatgtggcacatttgtggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGATGACCAATCCCCATATTGGTAACACTGGCGTTAATCCTG
                 taagaatt  TA-rich tract