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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCATACCGTGTGCTGTATATCCTTAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactccatcatcttacctttccatttctcatggttatggtggatgatcttttaactgttatatatacttttgttgcag

Basic information

species Oryza sativa
transcript LOC_Os11g28340.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g28340.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G031802_T01 (Zea mays), 5'ss of exon 2
TGCATACCGTGTGCTGTATATCCTTAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactccat-catcttacctttccatttctca----tggttatg----gtggatgatcttttaactgttatatatactttt-gttgcag-----------------------------------------------------
||| ||||||||||| ||||||||||||||||| |||||||||||||||||||||||||| || || |||||||||||| | ||| |    | | | |||  ||| ||      || ||  |    |   || || |  | |  | | | |  |||     ||   |                                                     
TGCCTACCGTGTGCTTTATATCCTTAACTGGATTTACCGATACTTCACTGAGCCCCATTTTGTCCACTGGATAAgtatgaattccttgtgccatccatttttattccttgaatgtgattcggagccgcacattatttcattaaagatgtttgcactccccattatggtaggtgtaaccgttattcatgcagccattttctttgtgtttttcttaacccag

upper sequence: LOC_Os11g28340.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA18G35390.1 (Glycine max), 5'ss of exon 4
TGCATACCGTGTGCTGTATATCCTTAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactcca-tcatcttacct------ttccatttctcatggttatgg---tggatgatcttttaactgttatatatacttttgttgcag--------
 |||||| | |  || || || || |||||||||||||| ||||| || ||||| || || || |||||||||||||||   | |  | ||  |   |      | | |||| |  || || |     |  |  |  | ||||||  | | |  | | ||      |        
-GCATACAGAGCACTATACATTCTCAACTGGATCTACCGCTACTTTACCGAGCCTCACTTTGTCCATTGGATAAGtatgattttctcttattctgtttaatggttactattttttttgcttctacacttaaaataattattaactactctctgcattgttaactatgtcttgtgg

upper sequence: LOC_Os11g28340.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA08G46570.1 (Glycine max), 5'ss of exon 4
TGCATACCGTGTGCTGTATATCCTTAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatgga-ctccatcatcttacctttccatttctcatggttatggtgg-atgatcttt-taactgttatatatacttttgttgcag--------------
||||||| | |  || || || || ||||||||||| || ||||| ||||||||||| || || |||||||||||||||   |||  | ||  |   ||    || ||  |  || || |   | | |  || ||| | |||  ||         ||||               
TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGAGCCCCACTTTGTCCATTGGATAAgtatgattctctcttattgtgttttatggttactattttttttgcttctacgcttattataattattaagtaactacactctgcattattcactactatg

upper sequence: LOC_Os11g28340.1 (Oryza sativa), 5'ss of exon 4
lower sequence: AT3G25040.1 (Arabidopsis thaliana), 5'ss of exon 4
TGCATACCGTGTGCTGTATATCCTTAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactccatcatctt---acctt---------tccatttctcatggttatggt-ggatgatcttttaactgttatatatacttttgttgcag----
 |  |||||||   | || ||||| |||||||||||||| |||||||||||||| || || ||||| ||||||||||||  |  |    |||    |||||         ||  ||| |  |  |  |  | |||| |  ||||  |   |||    |||| ||    |     
GGGGTACCGTGGATTATACATCCTCAACTGGATCTACCGTTACTTCACTGAGCCGCACTTTGTTCACTGGATAAgtatgttcctctctctctctcaaccttcactgagcatctgtttattttcctcctaattggattagtttttgtcaactattgcaacttatgactaaaaatg

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|117216901|gb|CT861591.1|CT861591
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|88476998|gb|CI414269.1|CI414269
EST:     AGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: AGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|88849104|gb|CI087626.1|CI087626
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|88555052|gb|CI485279.1|CI485279
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|88528582|gb|CI456828.1|CI456828
EST:     CGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: CGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|86542052|gb|CI182258.1|CI182258
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|86529172|gb|CI169378.1|CI169378
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|426840|gb|D22915.1|D22915
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|86886118|gb|CI321154.1|CI321154
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|27546640|gb|CA764760.2|CA764760
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|88262756|gb|CI366530.1|CI366530
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GGTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|86870391|gb|CI319497.1|CI319497
EST:     GATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGGCTGACTTCTTCTAC
genomic: GATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTAT-GCTGACTTCTTCTAC
EST: gi|88533140|gb|CI460677.1|CI460677
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|88241404|gb|CI241253.1|CI241253
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|88541507|gb|CI470782.1|CI470782
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|33691459|gb|CF319698.1|CF319698
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|86545642|gb|CI185848.1|CI185848
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|88529756|gb|CI458100.1|CI458100
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|89187774|gb|CI009758.1|CI009758
EST:     TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TAACTGGATCTACCGATACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
EST: gi|88439304|gb|CI536276.1|CI536276
EST:     TACTTCACTGAGCCCCATTTCGTTCATTGGATAA                         GCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT
genomic: TACTTCACTGAGCCCCATTTCGTTCATTGGATAAgtatggactc ... tttgttgcagGCTGGGTTGCGGGCATCGTGCAGACTCTCTTGTATGCTGACTTCTTCTACT