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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctctctcaccctttgatgatcttaaaaacaactctaagataaaagcctgatctgattatatgtatcaatgatctgatatctgttctgtttatagATATTCTACTTCATTGGGTTTGCATTTTTCTGCCTCGAATCAGTGGTTAGCATCTGGGTTATTCAGGTCTGTCTCTTCAACTCCCATCACTATATTATCA

Basic information

species Arabidopsis thaliana
transcript AT1G61250.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G61250.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G011078_T01 (Zea mays), 3'ss of exon 11
----------------------------------------------------------------------------------------gtaagctct-ctcaccctttgatgatctta-aaaacaactctaagataaaagcctgatctgattatatgtatcaatgatctga-tatctgttctgtttatagATATTCTACTTCATTGGGTTTGCATTTTTCTGCCTCGAATCAGTGGTTAGCATCTGGGTTATTCAGGTCTGTCTCTTCAACTCCCATCACTATATTATCA
                                                                                          ||  | | |  ||      |  ||||   |   ||  | | |  |  |  |   |  | | |   |   |  ||| |   | ||| |   |  | |  |||| |||||||||||||| |||||||| |||||||| ||  |  || | ||| | ||||| ||||||                                  
gtgagtgagtgagtctaccgctattattcagtctgaatccagtaaatcagaattccacaggataatagtacctatatttcctgcaaagacaaattgtacatacatcaaaagcatctcgcatggcatgttttatgtggacacgacaa-taactccgttcttggatgttaaaactattttgacaatctccagATCTTCTACTTCATTGGCTTTGCATTGTTCTGCCTGGAGGCTTTGCTAAGCGTGTGGGTCATTCAG----------------------------------
















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|125277678|gb|EL291763.1|EL291763
EST:     TCTTACCTGCAATAGATGTCTTAAGTGGTCAAGCAATTGTTGGG                         ATATTCTACTTCATTGGGTTTGCATTTTTCTGCCTCGAATCAGTGGTTAGC
genomic: TCTTACCTGCAATAGATGTCTTAAGTGGTCAAGCAATTGTTGGGgtaagctctc ... ctgtttatagATATTCTACTTCATTGGGTTTGCATTTTTCTGCCTCGAATCAGTGGTTAGC
EST: gi|124793949|gb|EH883628.1|EH883628
EST:     TGGGATCTTACCTGCAATAGATGTCTTAAGTGGTCAAGCAATTGTTGGG                         ATATTCTACTTCA
genomic: TGGGATCTTACCTGCAATAGATGTCTTAAGTGGTCAAGCAATTGTTGGGgtaagctctc ... ctgtttatagATATTCTACTTCA
EST: gi|125208102|gb|EL223056.1|EL223056
EST:     TGGGATCTTACCTGCAATAGATGTCTTAAGTGGTCAAGCAATTGTTGG-                         ATATTCTACTTCATTGGGTTTGCAT
genomic: TGGGATCTTACCTGCAATAGATGTCTTAAGTGGTCAAGCAATTGTTGGGgtaagctctc ... ctgtttatagATATTCTACTTCATTGGGTTTGCAT
EST: gi|125031336|gb|EL103605.1|EL103605
EST:     TGGGATCTTACCTGCAATAGATGTCTTAAGTGGTCAAGCAATTGTTGGG                         ATATTCTACTTC
genomic: TGGGATCTTACCTGCAATAGATGTCTTAAGTGGTCAAGCAATTGTTGGGgtaagctctc ... ctgtttatagATATTCTACTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaagcctgatctgattatatgtatcaatgatctgatatctgttctgtttatagATATTCTACTTCATTGGGTTTGCATTTTTCTGCCTCGAATCAGTGGTTAGCATCTGGGTTATTCAGGTCTGTCTCTTCAACTCCCATCACTATATTATCA
                               atctgat  putative branch site (score: 4)
                                       tctgttct  CT-rich tract
               attatatgtatcaat  TA-rich tract