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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTAACATTGCAAGATGGTTGAAGAAAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgtatggttcttgaaccagagttaacatggcatgtaaaataccactattaagattcttatgtgaacattgtcatctaaatgtatttcatatttcatatgaag

Basic information

species Glycine max
transcript GLYMA07G03930.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G03930.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os06g01630.6 (Oryza sativa), 5'ss of exon 6
GGTAACATTGCAAGATGGTTGAAGAAAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgtatggt--tcttgaaccagagttaacatggcatg-taaaataccactattaagattcttatgtgaacattgtcatctaaat-gtatttcatatttcatatgaag--
|| ||||||||||| ||| ||||||||||||| |||||| |||| ||||||||||| || |||||||| || |||||| | |  | |   |        | || | | || |  |||  | ||| |    ||  |    || ||    || || ||   |   ||| ||||    |||    
GGAAACATTGCAAGGTGGGTGAAGAAAGAAGGAGATAAAGTCTCACCTGGTGAAGTTCTTTGTGAAGTAGAGACTgtaagttactttcttaatgtgcacaccaagacttgatttaatttccctactttatttaattaaggagcaacagcagcttaaccatcaatcacatttatggtgattag

upper sequence: GLYMA07G03930.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os02g01500.1 (Oryza sativa), 5'ss of exon 7
GGTAACATTGCAAGATGGTTGAAGAAAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgtatggttcttga-accagagttaacatggcatgtaaaataccactattaagattcttatgtgaacattgtcatctaaatgtatttcatatttcatatgaag----------------------------------
|| ||||||||||| ||| ||||||| ||||| |||||  |||| ||||||||||| |||||||| || || || ||| | ||  | | |    ||   ||||| ||| ||   |      ||| |  ||    | || |  | | ||  ||  | ||||  |   | ||   ||||                                  
GGGAACATTGCAAGGTGGCTGAAGAAGGAAGGAGATAAGGTCTCACCTGGTGAAGTTCTCTGTGAGGTGGAGACGgtaagttttctaatatgtaaggctacatgccatatattgtttag--atttatttttagttatgcagttagccagttacttctatt--aagctgcagtagaagctaaatatcctttgaatgcattcctgctgactag

upper sequence: GLYMA07G03930.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os07g22720.2 (Oryza sativa), 5'ss of exon 7
GGTAACATTGCAAGATGGTTGAAGAAAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgtatggttcttgaac-cagagttaaca-tggcatgtaaaatacc-actattaa-gattcttatgtgaacattgtcatctaaat------gtatttcatatttcatatgaag-----------------
|| ||||||||||| ||| ||||||| ||||| |||||  |||| ||||||||||| || ||||| || || |||||| | ||  ||| | |  ||  | || |  | |    | |||  | | |||  | | || |  |      | | || |||          | |  | || || | ||||                  
GGGAACATTGCAAGGTGGCTGAAGAAGGAAGGAGATAAGGTCTCACCTGGTGAAGTTCTTTGTGAGGTGGAGACTgtaagttttctgatctctaaggcagcaatatcttagttagtacttatttttagtggtgctcaattattttcttttatttaagctgcaagagaatctaaatatcctttgaatgcatttctgctgactag

upper sequence: GLYMA07G03930.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G13930.1 (Arabidopsis thaliana), 5'ss of exon 8
GGTAACATTGCAAGATGGTTGAAGAAAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgta-tggt--tcttgaaccagagttaacatggcatg--taaaataccactattaagattcttatgtgaacattgtcatctaaatgtatttcatatttcatatgaag
||||||||||| || ||| |||||||||||||||||||| |  |||||||||||||||| |||||||||||||||||| || |  || |||   |   |   | ||   ||  |   || |||  | ||| |  ||||| | ||  ||   || | |                        
GGTAACATTGCCAGGTGGCTGAAGAAAGAAGGTGATAAAGTTGCTCCTGGTGAAGTGCTTTGTGAAGTTGAAACTgtaatgataatcctgattgaatctcttcctgtattgattcttatgccaggaataaaacacttatctcaatcttaatattttag-----------------------

upper sequence: GLYMA07G03930.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G54220.2 (Arabidopsis thaliana), 5'ss of exon 7
GGTAACATTGCAAGATGGTTGAAGAAAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgtatggttcttgaaccagagttaacatggcatgtaaaataccactattaagattcttatgtgaacattgtcatctaaatgtatttcatatttcatatgaag
|||||||| || || ||| |||| ||||||||||||||| |  ||||||| ||||| |||||||||||||||||||||  ||   ||    ||| | |   |    |      ||    ||||   ||  ||  |  |  | | | |      | | ||   ||            
GGTAACATCGCCAGGTGGCTGAAAAAAGAAGGTGATAAAGTTGCTCCTGGGGAAGTACTCTGTGAAGTTGAAACTgtaatgtcaatg---tagattgagtctcatttccg---tatttttattttcatgttttggaaataactctgactaggttatgttcagtag-----------

upper sequence: GLYMA07G03930.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0002g01800.t01 (Vitis vinifera), 5'ss of exon 8
GGTAACATTGCAAGATGGTTGAAGAAAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgtatggttcttgaac-cagagt--------taa-----catggcatgtaaaataccactattaagattcttatgt-----gaacattgtcatctaaatgtatttcatatttcatatgaag
||||||||||| || |||||||||||||| ||||||||||||||||||||||||||||||||||||||||| |||||| ||  |||| || | ||||        |||     |        |  |  ||  |  ||| |    |||        ||| | || | | ||  | |  || |  |   || || ||
GGTAACATTGCGAGGTGGTTGAAGAAAGAGGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAGACTgtagggcccttgtactctgagtctgttggttaaattctctcaattaatggagcactccggttaggtgctttactcatctggaaaactgacgtttacctttcattgaattgatatttgtag

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|27809080|gb|CB063502.1|CB063502
EST:     AAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACT                         GATAAAGCCACTGTTGAAATGGAATGTATGGAGGAAGGTTATCTGGCCAAG
genomic: AAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgtatggttct ... tcatatgaagGATAAAGCCACTGTTGAAATGGAATGTATGGAGGAAGGTTATCTGGCCAAG
EST: gi|8283933|gb|BE021492.1|BE021492
EST:     AAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACT                         GATAAAGCCACTGTTGAAATGGAATGTATGGAGGAAGGTTATCTGGCCAAG
genomic: AAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgtatggttct ... tcatatgaagGATAAAGCCACTGTTGAAATGGAATGTATGGAGGAAGGTTATCTGGCCAAG
EST: gi|213616567|gb|DB965737.1|DB965737
EST:     AAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACT                         GATAAAGCCACTGTTGAAATGGAATGTATGGAGGAAGGTTAT
genomic: AAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgtatggttct ... tcatatgaagGATAAAGCCACTGTTGAAATGGAATGTATGGAGGAAGGTTAT
EST: gi|209714755|gb|BW654105.1|BW654105
EST:     AAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACT                         GATAAAGCCACTGTTGAAATGGAATGTATGG
genomic: AAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgtatggttct ... tcatatgaagGATAAAGCCACTGTTGAAATGGAATGTATGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTAACATTGCAAGATGGTTGAAGAAAGAAGGTGATAAAATCTCTCCTGGTGAAGTGCTCTGTGAAGTTGAAACTgtatggttcttgaaccagagttaacatggcatgtaaaataccactattaagattcttatgtgaacattgtcatctaaatgtatttcatatttcatatgaag

- - - - - - - - - - - -  AAGAAG