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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaaaaatcttattccaataacttgatacatgagtttctttaagattacttcatagtattttcataaaaaaaataaaaaattgagtgcatttcttaatatattgatcag

Basic information

species Glycine max
transcript GLYMA07G05390.1
intron # 7
splice site 5'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G05390.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G01050.1 (Arabidopsis thaliana), 5'ss of exon 7
ATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaaaaatcttattccaataacttgatacatgagtttctttaagattacttcatagtattttcataaaaaaaataaaaaattgagtgcatttcttaatatattgatcag
|||||||| |||| ||||||||| |||||||||||||| |||||| ||||||||||||| ||||| || |||   || || || || ||||| ||||| |||||||||       ||  | || |              ||| ||      | |  || || |  | ||  || ||  || |    ||   |  |  ||| ||||| ||   |||
ATTGCAGTGTGTGTTGATGATCCTGAATATAAGCACTACACTGACATCAAAGAACTTCCTCCTCACCGTCTCTCTGAAATCCGTCGTTTCTTCGAAGACTgtatcctt-------tttcttcagt--------------gttcctccttattcatctc-tattgatctctcaacaagtattagtttttccctttaactct-aatatctta--cag

upper sequence: GLYMA07G05390.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv02s0025g02980.t01 (Vitis vinifera), 5'ss of exon 6
ATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaaaaatcttattccaataacttgatacatgagtttctttaagattacttcatagtattttcataaaaaaaataaaaaattgagtgcatttcttaatatattgatcag
||||| ||||| ||||| ||||||||||||   ||||| |||||| ||||||| |||||||||||| | ||    ||||| || || ||||||||||| |||||||||     || | || || |   |  |        |||| | || |||  || |  | ||       || || | | ||| ||       |||||| | | |    ||||
ATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGATCCGGCGATTCTTTGAAGACTgtatccttt----tcatctttcagt---tcaacc------tttcatgaaaatttgttaaggggat------gaacaatagacaaattt-------tttcttgacaaacaattcag
















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|8401989|gb|BE057623.1|BE057623
EST:     AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATT                         ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
genomic: AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaa ... tattgatcagACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
EST: gi|254315135|gb|GR830128.1|GR830128
EST:     AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATT                         ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
genomic: AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaa ... tattgatcagACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
EST: gi|254344222|gb|GR851025.1|GR851025
EST:     AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATT                         ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
genomic: AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaa ... tattgatcagACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
EST: gi|17400209|gb|BM176991.1|BM176991
EST:     GAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTNGA-GATT                         ACAAGAAGAATGAGAAACA-GGAGGTAGCAGTTAATGATTTT
genomic: GAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTT-GAAGATTgtatccttaa ... tattgatcagACAAGAAGAATGAGAA-CAAGGAGGTAGCAGTTAATGATTTT
EST: gi|254315134|gb|GR830127.1|GR830127
EST:     AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATT                         ACA-GAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTT-CTACCTGCAT
genomic: AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaa ... tattgatcagACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
EST: gi|254344223|gb|GR851026.1|GR851026
EST:     AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATT                         ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
genomic: AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaa ... tattgatcagACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
EST: gi|18040990|gb|BM309284.1|BM309284
EST:     AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATT                         ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
genomic: AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaa ... tattgatcagACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
EST: gi|209698574|gb|BW652427.1|BW652427
EST:     AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATT                         ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
genomic: AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaa ... tattgatcagACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
EST: gi|151399288|gb|EV269159.1|EV269159
EST:     AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATT                         ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
genomic: AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaa ... tattgatcagACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
EST: gi|5666812|gb|AI930848.1|AI930848
EST:     AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATT                         ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
genomic: AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaa ... tattgatcagACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
EST: gi|21995190|gb|BQ786718.1|BQ786718
EST:     AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATT                         ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT
genomic: AGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaa ... tattgatcagACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGATTCGCCGCTTCTTTGAAGATTgtatccttaaaaatcttattccaataacttgatacatgagtttctttaagattacttcatagtattttcataaaaaaaataaaaaattgagtgcatttcttaatatattgatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA