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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCTGGCATTTGATTTGTCCCTCTCTGCCCTTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaattatatcaaaaattttggagcacctatcctttgaaatttctttacttcattcatccatcttcttactatgttggttgacatagtttaataatatcatgaacag

Basic information

species Glycine max
transcript GLYMA01G01460.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G01460.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S66_117V6.1 (Physcomitrella patens), 5'ss of exon 3
GATCTGGCATTTGATTTGTCCCTCTCTGCCCTTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaattatatcaaaaattttggagcacctatcctttgaaatttctttacttcattcatccatcttcttactatgttggttgacatagtttaataatatcatgaacag
||||| ||||||||| | || ||  | ||| |  | ||||| |||||||| |||||||||||||| |||||||| ||||| || |||  ||  | || |  |||||| ||   | || | |     |  | || |   ||  | |  |||| |   ||||    | || ||    | |   |          
GATCTTGCATTTGATCTTTCACTGGCGGCCTTGTTGGGGGACAACATCTATAACTTCGGAGAGCTTCTTGCCCACCCTATCgtaagtttttcaagcata--ttttggtgctatt-tcgtatatccctgatgtattgtctttgttctccttcgtttgatgtcatctaacttataacactggcagt--------
















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|151410399|gb|EV280214.1|EV280214
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTCCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
EST: gi|14008620|gb|BG725224.1|BG725224
EST:     CTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
genomic: CTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
EST: gi|207794208|gb|GD765722.1|GD765722
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
EST: gi|12688358|gb|BG154694.1|BG154694
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
EST: gi|151396447|gb|EV266324.1|EV266324
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTG
EST: gi|23052675|gb|BU577167.1|BU577167
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAAGTGGATTGGCTTTACTACATTCTGCAG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
EST: gi|27426218|gb|CA937738.1|CA937738
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
EST: gi|23052846|gb|BU577337.1|BU577337
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
EST: gi|151413131|gb|EV282939.1|EV282939
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCT
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCT
EST: gi|6501937|gb|AW203310.1|AW203310
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
EST: gi|308098687|gb|HO760428.1|HO760428
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCTTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
EST: gi|151397751|gb|EV267624.1|EV267624
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAGGGTGGAATGGCTTTACTACATTCTGCAG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
EST: gi|15204623|gb|BI427391.1|BI427391
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
EST: gi|11688213|gb|BF595889.1|BF595889
EST:     TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATA                         ATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG
genomic: TTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaatt ... tcatgaacagATTAAGAGCCTTATGGGGACAAAGGTGGAATGGCTTTACTACATTCTGCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATCTGGCATTTGATTTGTCCCTCTCTGCCCTTCTTGGGGATAACATCTACAACTTCGGAGAGCTACTTGCCCATCCTATAgtgagtaattatatcaaaaattttggagcacctatcctttgaaatttctttacttcattcatccatcttcttactatgttggttgacatagtttaataatatcatgaacag

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