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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacagttagaagattgcagtaaaatctgtgtcatgactaaatgttttaccataatatatttgtatacatatcctgagtttattttaaatacatttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCTGAACTGGTTAGAGATTTCTTCTGGGATGGTGATTTTCGTCTAAAGTGGG

Basic information

species Zea mays
transcript GRMZM2G121223_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G121223_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g08760.2 (Oryza sativa), 3'ss of exon 1
aacagttagaagattgcagtaaaatctgtgtc----atgactaaatgttttac-cataatatatttgtatacatatcctgagtttattttaaatacatttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCTGAACTGGTTAGAGATTTCTTCTGGGATGGTGATTTTCGTCTAAAGTGGG
   | ||      ||       |||||  ||      |||| ||||   |  |  |||   |||      |||| |  ||   | || ||   |    || | ||| ||||||||| |||||||| || ||||||||||||||||||||||||||||| || |||||||||||||||||||||| ||| |||||||| |||||||
---atttcctgtcttttcaatgaatctacgtttgatgtgaccaaatcaatagcatataggttatagtgcaacatctaatggactgatcttcctt-tgcttgt-agGTGGGACCTATCATGTACTGTAGTCGCACTATTTTTGAGGATGCTACTCCTGAGCTTGTTAGAGATTTCTTCTGGGATGATGAATTTCGTCTGAAGTGGG

upper sequence: GRMZM2G121223_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT4G14500.1 (Arabidopsis thaliana), 3'ss of exon 2
-aacagttagaagattgcagtaaaatctgtgtcatgactaaatgttttac---cataatatatttgtatacatatcctgagtttattttaaatacatttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCTGAACTGGTTAGAGATTTCTTCTGGGATGGTGATTTTCGTCTAAAGTGGG
      ||   | | || | |      |   | |  |||| ||| |  |      | ||  | |||| |   || |||||   ||  |   ||   ||||| ||   || ||| | || ||  ||||||| ||| | ||||||||||| ||||| ||  | ||||| |||||||||||||||| ||| ||||| |  || ||||
gtgttcttgctataatgaaatggggaattcttaaatactagatgatagaaacatttgatcaaattgtgtttgtagcctga---taggtcgtat-tgtttatcagACAGGTCCTGTTATTTATCGCAGCCGGACTGTGTTTGAGGATGCAACTCCAGATATTGTTAGGGATTTCTTCTGGGATGATGAGTTTCGACCTAAATGGG

upper sequence: GRMZM2G121223_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv05s0020g04870.t01 (Vitis vinifera), 3'ss of exon 2
aacagttagaagattgcagtaaaatctgtgtcatgactaaatgtt--ttaccataatatatttgt-atacatatcctgagtttattttaa----atacatttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCTGAACTGGTTAGAGATTTCTTCTGGGATGGTGATTTTCGTCTAAAGTGGG
           |  ||        | ||| |  ||  ||| | |   ||  |||  || | |    ||| |  || | |||      |||     |   ||||| || | || || |   ||||  | ||| | ||| | ||||||||||| ||||| ||  |||||||||||||||||||||||| ||| ||| | |  || ||||
-------gtgtgtgtgtgtgtgtgtgtgtattgtgcataattttcaattctcattgtagactgaagataaaattcattagtaaccgataatggtgtttctttatcagAATGGCCCCACTGTGTATCGTAGCAGAACTGTATTTGAGGATGCAACTCCCGAGGTGGTTAGAGATTTCTTCTGGGATGATGAGTTTAGACCTAAATGGG

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|148963895|gb|EE015006.2|EE015006
EST:     AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
genomic: AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAGgttcgtcttt ... catttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
EST: gi|71772130|gb|DR970067.1|DR970067
EST:     AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
genomic: AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAGgttcgtcttt ... catttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
EST: gi|148969662|gb|EE020526.2|EE020526
EST:     AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
genomic: AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAGgttcgtcttt ... catttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
EST: gi|71433771|gb|DR814821.1|DR814821
EST:     AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
genomic: AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAGgttcgtcttt ... catttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
EST: gi|76018553|gb|DT945723.1|DT945723
EST:     AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
genomic: AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAGgttcgtcttt ... catttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
EST: gi|149104717|gb|EE290166.2|EE290166
EST:     AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCC
genomic: AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAGgttcgtcttt ... catttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCC-
EST: gi|148967941|gb|EE019253.2|EE019253
EST:     AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
genomic: AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAGgttcgtcttt ... catttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCT
EST: gi|148972136|gb|EE023006.2|EE023006
EST:     AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAG                         GAGGGACCTATAATGTACTGCAGCCGCACTATTTTTTGAGGATGCTACTCC
genomic: AGCGTAGAACCTCCAACATGACATACAATGCCTGGCGGCGTGAGCCTGAGgttcgtcttt ... catttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTT-GAGGATGCTACTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaccataatatatttgtatacatatcctgagtttattttaaatacatttattagGAGGGACCTATAATGTACTGCAGCCGCACTATTTTTGAGGATGCTACTCCTGAACTGGTTAGAGATTTCTTCTGGGATGGTGATTTTCGTCTAAAGTGGG
                            tgagtttattttaaat  TA-rich tract