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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtcatagagctccatcttttttgaaaaaaaaatctttaatccatatttattattaaacactaaattgacgacttggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAGTCTATCATACACTCTATGGTTGAAA

Basic information

species Zea mays
transcript GRMZM2G056975_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g01710.2 (Oryza sativa), 3'ss of exon 8
gtgtcatagagctccatcttttttgaaaaaaaaatctttaatccatatttattat-taaacactaaattgacgacttggt-cttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAGTCTATCATACACTCTATGGTTGAAA
        | | |     |    |   | ||   |  | |   ||| ||     | |   ||||||| |||  ||||| | | |  |||||||||||||||||||||||||||||||||||||||||||||| ||||||||||| |||||||| |||||||| |||||||||||||||||| ||||||
--------gtgtttgcagtaaactttcagaattttactgaggtcatgttggcagtatttgcactaaaatgatcacttgattcatacagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATACGATGACATTGAAATTGTGATCCACCCACAATCTATCATACACTCTATGATTGAAA

upper sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA17G09740.1 (Glycine max), 3'ss of exon 8
------------------------gtgtcatagagctccatcttttttgaaaaaa-----aaatctttaatccatatttatta-ttaaacactaaattgacgacttggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAGTCTATCATACACTCTATGGTTGAAA
                         | |   |       | | |||||  |||       || | | |  |    ||||  ||  || |   ||||||    |       |   ||||| ||||||| |||||||||||||| || ||||| ||||| |||||| | ||||||||||| ||||| ||||| || |||||||| || ||| ||||||
gtttgtttctttttttatgtcaacatattggacgcaaatagcctttttataaatctgtttaattatgtggtatgaatttcctagctataaggtaaatttcttatacttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTATGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA

upper sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 8
---------------------gtgtcatagagctccatcttttttgaaaaaa-----aaatctttaatccatatttatta-ttaaacactaaattgacgacttggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAGTCTATCATACACTCTATGGTTGAAA
                      | |   |       | |  ||||  |||       || | | |  |    ||||  ||  || |   ||||||            |   ||||| ||||||| |||||||||||||| || ||||| ||||| || ||| | ||||||||||| ||||| ||||| || |||||||| || ||| ||||||
gtttgcttctttttttatgtcatattgaatgaaaagagccattttataaatctgtttaattatgtggtatgaatttcctagctataaggtaaatttcttctgcttcttcacagGGTCTAGAAGTAATTGAAGCACATTACTTGTTTGGAGCTGACTACGATCATATTGAGATTGTCATTCATCCACAATCAATCATACATTCAATGATTGAAA

upper sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 8
--------gtgtcatagag-ctccatcttttttgaaaaaaa--aatctttaatccatatttattattaaacactaaattg-----acgacttggtctt--------gtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAGTCTATCATACACTCTATGGTTGAAA
         | |  | | | ||| ||  ||  | | |   |  ||| | | |   |   |  | | ||    || | |||     |  || | || ||          ||||||||||||||||||||||||| ||| | ||||| |||||||||||||| ||||||||  | ||||| ||||| ||||||||||| |||||||| ||||
gtttgtcccttttttggtgtctctattcttgattacatgcaccaatatgtgaatgaatctactcactatggtctgagttgcaacaaataccttgttttcctttttgacagGGTTTAGAAGTTATTGAAGCACACTATCTGTTTGGGGCTGAATATGATGATATTGAGATCATAATTCATCCACAATCTATCATACATTCTATGGTCGAAA

upper sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 8
lower sequence: EFJ07179 (Selaginella moellendorffii), 3'ss of exon 9
gtgtcatagagctccatcttttttgaaaaaaaaatctttaatccatatttattattaaacactaaattgacgacttggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAGTCTATCATACACTCTATGGTTGAAA
                        | |||||||          ||| |||||  ||     || || | ||  |||   || | ||||  | || || |||||||| || ||||| ||||| ||||| |||||||||||||| ||||| || || || || || || |||||||| ||| | || |
------------------------gtaaaaaaa----------catttttatacttgtctgctgaactaacatcttctgctggcagGGACTCGAGGTCATTGAAGCTCACTATTTGTTTGGAGCTGACTATGATGACATTGACATTGTTATCCATCCCCAATCCATTATACACTCCATGATCGAGA

upper sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 8
lower sequence: EFJ09183 (Selaginella moellendorffii), 3'ss of exon 9
gtgtcatagagctccatcttttttgaaaaaaaaatctttaatccatatttattattaaacactaaattgacgacttggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAGTCTATCATACACTCTATGGTTGAAA
                        | |||||||          ||| |||||  ||     || || | ||  |||   || | ||||  | || || |||||||| || ||||| ||||| ||||| |||||||||||||| ||||| || || || || || || |||||||| ||| | || |
------------------------gtaaaaaaa----------catttttatacttgtctgctgaactaacatcttctgctggcagGGACTCGAGGTCATTGAAGCTCACTATTTGTTTGGAGCTGACTATGATGACATTGACATTGTTATCCATCCCCAATCGATTATACACTCCATGATCGAGA

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|14244555|gb|BG840684.2|BG840684
EST:     ATGGGAAGNAAGATCACAGTAGATTCTGCTACTTTATTCAACAAG                         GGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC
genomic: ATGGGAAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAGgtgtcataga ... ggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC
EST: gi|14206809|gb|BG840487.1|BG840487
EST:     GGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAG                         GGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC
genomic: GGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAGgtgtcataga ... ggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC
EST: gi|84970217|gb|DW468567.1|DW468567
EST:     GGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAG                         GGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC
genomic: GGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAGgtgtcataga ... ggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC
EST: gi|71445034|gb|DR826084.1|DR826084
EST:     AAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAG                         GGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC
genomic: AAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAGgtgtcataga ... ggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC
EST: gi|86474441|gb|DY240811.1|DY240811
EST:     GGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAG                         GGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC
genomic: GGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAGgtgtcataga ... ggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC
EST: gi|211496438|gb|FL049443.1|FL049443
EST:     GGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAG                         GGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGA
genomic: GGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAGgtgtcataga ... ggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGA
EST: gi|32798103|gb|CD950339.1|CD950339
EST:     GGAATATGGGAAGGAAGATCACAGTAGATTCCGCTACTTTATTCAACAAG                         GGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC
genomic: GGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACTTTATTCAACAAGgtgtcataga ... ggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatctttaatccatatttattattaaacactaaattgacgacttggtcttgtagGGTTTAGAAGTTATTGAAGCACATTATTTATTTGGTGCTGAATATGATGACATTGAGATTGTGATTCACCCACAGTCTATCATACACTCTATGGTTGAAA
     tttaatccatatttat  TA-rich tract