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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGATGGCCCTTTTGCTCCTGAGGCATACACTGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgattaatacattgtatatctcctgtgtttttttgtcgatgtaaagttaactgactctgttggtatttgacag

Basic information

species Zea mays
transcript GRMZM2G156734_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G156734_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g36740.5 (Oryza sativa), 5'ss of exon 6
TTGATGGCCCTTTTGCTCCTGAGGCATACACTGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgattaatacattgtatatctcctgtgtttttttgtcgatgtaaagttaa--ctgactctgttggtatttgacag-------------------------------------------------------------------------------------------------------------
 | ||||| ||| | ||| | ||||||||||| ||||||||||  || |||||||||||||| |||||||||||||||||||| ||| |  | |   || |||     |  || | |  | ||| |  |   || |   || |     |   ||||| ||                                                                                                              
CTAATGGCTCTTCTACTCTTAAGGCATACACTAACCATTACTAGTAGTGATGATGAAGATGACGCATCTGCTATTTTCTCGgtaagttag-atttttttttatgcagtc-atgctctgctatcggttcatgttttaacttggccacacttaaatttggcaagctatgactccttgcagttttagtgtgtggttaacatctgttattatttagttgctccttcattgtgcatttcactagttgctgatctttaacagttgtttcttttgag

upper sequence: GRMZM2G156734_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g36740.1 (Oryza sativa), 5'ss of exon 6
TTGATGGCCCTTTTGCTCCTGAGGCATACACTGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgattaatacattgtatatctcctgtgtttttttgtcgatgtaaagttaa--ctgactctgttggtatttgacag-----------------------------------------------------------------------------------------------
 | ||||| ||| | ||| | ||||||||||| ||||||||||  || |||||||||||||| |||||||||||||||||||| ||| |  | |   || |||     |  || | |  | ||| |  |   || |   || |     |   ||||| ||                                                                                                
CTAATGGCTCTTCTACTCTTAAGGCATACACTAACCATTACTAGTAGTGATGATGAAGATGACGCATCTGCTATTTTCTCGgtaagttag-atttttttttatgcagtc-atgctctgctatcggttcatgttttaacttggccacacttaaatttggcaagctatgactccttgcagttttagtgtgtggttaacatctgttattatttagttgctccttcattgtgcatttcactagttgctgatctttaacag

upper sequence: GRMZM2G156734_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g36740.4 (Oryza sativa), 5'ss of exon 6
TTGATGGCCCTTTTGCTCCTGAGGCATACACTGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgattaatacattgtatatctcctgtgtttttttgtcgatgtaaagtt--aactgactctgttggtatttgacag----------------------
 | ||||| ||| | ||| | ||||||||||| ||||||||||  || |||||||||||||| |||||||||||||||||||| ||| |  | |   || |||     |  || | |  | ||| |  |   ||  |  || |     |   ||||| ||                       
CTAATGGCTCTTCTACTCTTAAGGCATACACTAACCATTACTAGTAGTGATGATGAAGATGACGCATCTGCTATTTTCTCGgtaagttag-atttttttttatgcagtc-atgctctgctatcggttcatgttttaacttggccacacttaaatttggcaagctatgactccttgcagtttta

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|33101150|gb|CF061110.1|CF061110
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|76909618|gb|DV163452.1|DV163452
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGC
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGC
EST: gi|60357633|gb|DN224606.1|DN224606
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|74242886|gb|DT650800.1|DT650800
EST:     TGCCCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|78545094|gb|DV622592.1|DV622592
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|5871396|gb|AW017867.1|AW017867
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|6031346|gb|AW076203.1|AW076203
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|32924962|gb|CF029774.1|CF029774
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|32924741|gb|CF029553.1|CF029553
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|5770167|gb|AI973341.1|AI973341
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|32925907|gb|CF030719.1|CF030719
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|78125041|gb|DV543425.1|DV543425
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|32925165|gb|CF029977.1|CF029977
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|5325050|gb|AI783241.1|AI783241
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|78074789|gb|DV503223.1|DV503223
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|32926687|gb|CF031499.1|CF031499
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|60358023|gb|DN224996.1|DN224996
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|71332392|gb|DR803152.1|DR803152
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|6031347|gb|AW076204.1|AW076204
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|32925763|gb|CF030575.1|CF030575
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|16378881|gb|BI992655.1|BI992655
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|76013718|gb|DT940888.1|DT940888
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATG
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATG
EST: gi|86469928|gb|DY236298.1|DY236298
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|101402591|gb|EB822839.1|EB822839
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGG
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGG
EST: gi|211448714|gb|FL094698.1|FL094698
EST:     GACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: GACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|5846862|gb|AI999945.1|AI999945
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|32926380|gb|CF031192.1|CF031192
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|32924716|gb|CF029528.1|CF029528
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|60395273|gb|DN228142.1|DN228142
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|32840136|gb|CD979817.1|CD979817
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|60336732|gb|DN203705.1|DN203705
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|76936722|gb|DV174850.1|DV174850
EST:     TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGC
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGC
EST: gi|211013250|gb|FL462098.1|FL462098
EST:     TGACCATTACTAACAGTGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCAGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: TGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
EST: gi|15057151|gb|BI361123.1|BI361123
EST:     AGCGATGATGAAGATGATGCATCTGCTATTTTCTCG                         CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT
genomic: AGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgatt ... tatttgacagCTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGATGGCCCTTTTGCTCCTGAGGCATACACTGACCATTACTAACAGCGATGATGAAGATGATGCATCTGCTATTTTCTCGgttagtgattaatacattgtatatctcctgtgtttttttgtcgatgtaaagttaactgactctgttggtatttgacag

- - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG