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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgtgttcatattgtttgttctttgtttgtcatgtggctagcgcacatgaagttatttctaatatctctatgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTCATAGGCTGGGAAGGACATCTTTTAGGGCTGTGAAATCTAAACGTGACTA

Basic information

species Zea mays
transcript GRMZM2G472991_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G472991_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g66520.1 (Oryza sativa), 3'ss of exon 4
gtatgttgtgttcatattgtttgttc---tttgtttgtcatgtggctagcgcacatgaagt---------tatttctaatatctctatgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTCATAGGCTGGGAAGGACATCTTTTAGGGCTGTGAAATCTAAACGTGACTA
|||  |  |||| ||  |||||  ||   |||   | | ||||  | | |||| || |  |         | | |||||| | ||  | |  | |||| || |||||||||||||||||||||||||| ||  | |||||||| ||||||||| |||| |||||||||||||||||||||||||| || ||||||||
gtacatgctgttgatgatgttttctcatgttttacttttatgtcacaatcgcatatcagatgttctaacatttgtctaatctttcctttacctgcagACATCTTTGAGGTTGCCACAGAGGATGGTACCGTTTTGGCCATGAAGCTTCATAGGTTGGGTAGGACATCTTTTAGGGCTGTGAAATCCAAGCGTGACTA

upper sequence: GRMZM2G472991_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 4
-------gtatgttgtgttcatattgtttgttctttg-----tttgtcatgtg-gctagcgcacatgaagttatttctaatatctctatgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTCATAGGCTGGGAAGGACATCTTTTAGGGCTGTGAAATCTAAACGTGACTA
        | |  | | ||||| ||  ||     |       |||    |||| | |  | ||   ||   |  || |  ||| ||  |  |  | |||||||||||| |||||||  || ||||| |||||  | || ||||| || ||||||||||| || || ||||||||||| || |||||||| ||||| ||
gtaatttttcttatatattcattttaatttcctgtaaaaaaattttgtttgtgtgttttcacattagatactgattatggtatttcgtttcttca-agATATATTTGAAGTTGCCAAGGAAGATGGCACAGTCTTGGCAATGAAGCTGCATAGGCTGGGTAGAACTTCTTTTAGGGCCGTAAAATCTAAGCGTGATTA
















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|211277358|gb|FL192926.1|FL192926
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|20300018|gb|BQ162961.1|BQ162961
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|71429251|gb|DR810301.1|DR810301
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|93016530|gb|EB642050.1|EB642050
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|91056420|gb|EB166838.1|EB166838
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|89106284|gb|DY576501.1|DY576501
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|78112924|gb|DV531318.1|DV531318
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|20299997|gb|BQ162940.1|BQ162940
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCC-CAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|18384009|gb|BM417209.1|BM417209
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|18383990|gb|BM417190.1|BM417190
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|76014835|gb|DT942005.1|DT942005
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|76014878|gb|DT942048.1|DT942048
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|22489226|gb|BU049149.1|BU049149
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
EST: gi|78120952|gb|DV539336.1|DV539336
EST:     GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTG                         ATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC
genomic: GGGAGTTTTTGCTTCAGTTGGCCGTCAGATCGGTGTTGGAAAGGAGTCTGgtatgttgtg ... tgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtcatgtggctagcgcacatgaagttatttctaatatctctatgatatacagATATATTTGAGGTTGCCACAGAGGATGGTACAGTACTCGCCATGAAACTTCATAGGCTGGGAAGGACATCTTTTAGGGCTGTGAAATCTAAACGTGACTA
                               ttctaat  putative branch site (score: 2)
                                       tctctat  CT-rich tract
                        aagttatttctaatat  TA-rich tract