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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGTCTATAGTTTTGGTGTGGTTCTTCTTGAGCTTCTTACTGGCAGAAAACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgctgcttaaactcatacctcatcgctgctgtttttcaatcatttaccactggttgtcagccatagatattttgttgatattgatattttttgtag

Basic information

species Glycine max
transcript GLYMA10G44210.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G44210.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os09g33860.1 (Oryza sativa), 5'ss of exon 6
TGATGTCTATAGTTTTGGTGTGGTTCTTCTTGAGCTTCTTACTGGCAGAAAACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgctgcttaaactcatacctcatcgctgctgtttttcaatcatttaccactg--gttgtcagccataga--tattttgttgatattgatattttttgtag
|||||| ||||||||||| || |||||||| |||||||| || || || ||||| || || || || |||||||| || ||||||||||| || |||||||| ||  |  |  ||  |    |||  ||    |      |   |    ||| || | |   |||  |     |||  || ||||||||||     | | |      
TGATGTATATAGTTTTGGAGTTGTTCTTCTAGAGCTTCTAACAGGAAGGAAACCAGTAGATCACACAATGCCTAGGGGTCAGCAGAGTCTGGTTACATGGgtaagcattttatttgtaaatttactacaatatt-taacatgagagctgtttgcctcagctattggtaaaaggagaattactttgttgataagatcactct------

upper sequence: GLYMA10G44210.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os03g62700.1 (Oryza sativa), 5'ss of exon 6
TGATGTCTATAGTTTTGGTGTGGTTCTTCTTGAGCTTCTTACTGGCAGAAAACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgctgcttaaactcatacctcatcgctgctgtttttcaatcatttaccactggttgtcagccatagatattttgt-tgatattgatattttttgtag-
|||||| || ||||||||||| |||||| | || || || ||||| || ||||| || ||||| || |||||| | |||||||| ||||| ||||| ||||| ||| ||   ||   ||  | |    | ||  |  ||   |       || ||||  ||    |  || | |     ||  |  ||    |     |   || 
TGATGTGTACAGTTTTGGTGTAGTTCTTTTGGAACTCCTGACTGGAAGGAAACCAGTGGACCACACAATGCCTCGGGGACAGCAAAGTCTAGTCACTTGGgtaagt-tgtctctaccacctaaa----agcggagtcgtccatacgctccttcccacgcgtcacaaagcacacaagcactgccttctaggcctgaaaataacaga

upper sequence: GLYMA10G44210.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G153945_T03 (Zea mays), 5'ss of exon 6
TGATGTCTATAGTTTTGGTGTGGTTCTTCTTGAGCTTCTTACTGGCAGAAAACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgctgcttaaactcatacc-tcatcgctgctgtttttcaatcatttaccactggttgtcagccatagatattttgttgatattgatattttttgtag
|||||| ||||||||||| || || ||| | |||||||||||||| || |||||||| || ||||| ||||| || || |||||||||||||| || |||||  |  |     ||    |  |||| |  ||  || ||||||  ||||| ||    |   || ||    | |  ||       | |||| |||  |  |    
TGATGTATATAGTTTTGGGGTTGTCCTTTTAGAGCTTCTTACTGGAAGGAAACCTGTAGATCATACAATGCCAAGGGGCCAGCAGAGTCTTGTTACTTGGgtatgaattaaaattttcatactaccattctcaatgatgttttaaaatcagtttttgccatttctcccgaacaattaccgacaagctatttatacatgct----

upper sequence: GLYMA10G44210.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G029530_T01 (Zea mays), 5'ss of exon 6
TGATGTCTATAGTTTTGGTGTGGTTCTTCTTGAGCTTCTTACTGGCAGAAAACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgctgcttaaactcatacctcatcgctgctgtttttcaatcatttaccactggttgtcagccatagatattttgttgatattgatattttttgtag--
|||||| ||||| ||||| || |||||| | |||||||| || || || ||||| || || ||||| ||||||||||| ||||||||||| || |||||||| ||  |  || |    |      | || |    || || |||||      |      | ||   |||   | | |  | | ||| || |||| |  | ||   
TGATGTATATAGCTTTGGGGTTGTTCTTTTAGAGCTTCTAACAGGAAGGAAACCAGTAGATCATACAATGCCTAGAGGTCAGCAGAGTCTGGTTACATGGgtaagcattttgtt----cctgagtcccaacaagcctattattcaacttaagaatttcagctggttgcccgtgctttgctat-gatttttatatatcatataaat

upper sequence: GLYMA10G44210.1 (Glycine max), 5'ss of exon 7
lower sequence: AT2G43230.1 (Arabidopsis thaliana), 5'ss of exon 5
TGATGTCTATAGTTTTGGTGTGGTTCTTCTTGAGCTTCTTACTGGCAGAAAACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgctgcttaaactcatacctcatcgctgctgtttttcaatcatttaccactggttgtcagccatagatattttgttgatattgatattttttgtag
|||||| || |||||||| || || ||| | || |||||||| || |||||||| ||||| ||||| |||||| | || || |||||||||||||| |||||   |    | |||||  | |  | |  |  |||    |    |||| |||     ||||| | | |  |   | |     | ||||  |            
TGATGTTTACAGTTTTGGAGTTGTGCTTTTGGAACTTCTTACCGGGAGAAAACCGGTTGATCATACTATGCCTCGTGGTCAACAGAGTCTTGTCACTTGGgtacttaacttacttaatttgactctttctttctgagactaccaaatctttt---cttggttat-aactttctctgtaaatctaatatccag-----------

upper sequence: GLYMA10G44210.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv05s0124g00360.t01 (Vitis vinifera), 5'ss of exon 6
TGATGTCTATAGTTTTGGTGTGGTTCTTCTTGAGCTTCTTACTGGCAGAAAACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgctgcttaaactcatacctcatcgct--gctgtttttcaatcatttaccact------ggttgtcagccatagata---ttttgttgatattgatattttttgtag---------------------
|||||| ||||||||||| || |||||  | |||||||| ||||| |||||||||||||| |||||||||||| | ||||| || ||||| ||||| |||||  || |  | |||    |  | |||  | |||     |  |||   |||   |   |       | || ||  |   | ||    |||  |||||||  || | |  | ||                      
TGATGTGTATAGTTTTGGAGTTGTTCTGTTAGAGCTTCTAACTGGGAGAAAACCTGTTGATCATACCATGCCTCGTGGACAACAAAGTCTGGTCACCTGGgtgggt-tttttcttctttttctgcctatttgcttaaaagccttttgttcacccagtgcctttcaagtttctctactccaaattgcttttctttgatatatatctataatctaaagtgaacatttctcatcttag

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|7692618|gb|AW760720.1|AW760720
EST:     AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|11273675|gb|BF324133.1|BF324133
EST:     AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCATAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|14258438|gb|BG881346.1|BG881346
EST:     GTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: GTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|27424278|gb|CA935798.1|CA935798
EST:     AACCTGTTGACCANNNNNNNNCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|6725485|gb|AW309884.1|AW309884
EST:     AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|7691682|gb|AW759805.1|AW759805
EST:     AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|33389378|gb|CA852585.1|CA852585
EST:     AGTCTTGTCACATGG                         GCTACTCCAAGNATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAA
genomic: AGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAG-ATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAA
EST: gi|11273885|gb|BF324274.1|BF324274
EST:     AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|298178999|gb|HO024734.1|HO024734
EST:     AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|8826662|gb|BE210392.1|BE210392
EST:     AACCTGTTGACCATACCATGCCTAGAAGACAGCAGAGTCTTGTCACATGG                         GCTACTTCAAGATTAAGTGAAGATTAAGTTAAACAGTGC
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGC
EST: gi|6566081|gb|AW233841.1|AW233841
EST:     AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|31456715|gb|CD398743.1|CD398743
EST:     GCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: GCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|192303785|gb|FG996023.1|FG996023
EST:     AACCCGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|17022632|gb|BM093666.1|BM093666
EST:     AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|11688386|gb|BF596062.1|BF596062
EST:     AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|23727138|gb|BU761587.1|BU761587
EST:     AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
EST: gi|192327312|gb|FK019559.1|FK019559
EST:     AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGG                         GCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA
genomic: AACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgc ... ttttttgtagGCTACTCCAAGATTAAGTGAAGATAAAGTGAAACAGTGCGTTGACCCAAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGTCTATAGTTTTGGTGTGGTTCTTCTTGAGCTTCTTACTGGCAGAAAACCTGTTGACCATACCATGCCTAGAGGACAGCAGAGTCTTGTCACATGGgtcagtgtgctgcttaaactcatacctcatcgctgctgtttttcaatcatttaccactggttgtcagccatagatattttgttgatattgatattttttgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA