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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcccatataacatgtattatatgttgttatttatctggaaattattacctgagcaattgcttaaaaatgccactagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAACGTGATGTTAG

Basic information

species Glycine max
transcript GLYMA02G47460.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os09g12660.2 (Oryza sativa), 3'ss of exon 3
-------gtaagcccatataacatgtattatatgttgttatttatctggaaattattacctgagcaattgcttaaaaatgccact-----agGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAACGTGATGTTAG
        | || | ||       | |  |||||        | | | |||      |  | ||  ||||  |  |  |     |     ||||||| ||||| ||  | || ||||||   ||||| ||||||||||||||||| |||||||| ||||| || |||||| |||||||| | |||||| |  
gtaattgatgagtc-atccgttgag-accatatgcaacctgatctgttgaagcatacatttcagtgattgtctgcatgttttgatcttgcagGTTGACACTACCATACTTGGCCTTGATACTGAGAGGGCAAAGGAATTGCCTTACATTGCTAGTATGGGAATCTATGTTTTTAGCAAAGATGTGATGCTTA

upper sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os08g25734.2 (Oryza sativa), 3'ss of exon 3
-----------------------------------gtaagcccatataacatgtattatatgttgttatttatctggaaattattacctgagcaattgcttaaaaatgccac-tagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAACGTGATGTTAG
                                    ||  |   | | | || |    |||      |  ||  |  | || |  ||        |||| ||     | |   |||||||| ||||| ||  | || ||||| |||| ||| ||||| ||| ||||||||||||||||||||||||| |||||  |||| ||||| || ||| |  
gtatgcaaatgacgtgcctttcttgctaacttgtgatatacagttgtgagatatcagttattacaccacatacttccatatcaaaactcattttgttgcctattttcgtcttgtagGTTGACACTACCATACTTGGCCTTGACGACGTGAGGGCAAAAGAAATGCCTTATATTGCTAGCATGGGTATCTATGTGATTAGTAAAAATGTAATGCTTC

upper sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G163437_T01 (Zea mays), 3'ss of exon 3
-----------------------gtaagcccatataacatgtatt-atatgttgttatttatctgg---aaattattacctgagcaattgcttaaaaatgccact----------------agGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAACGTGATGTTAG
                         ||||  |  | ||||  |||  |      | |||||        ||| |||| ||     || ||| |  |  |   | |                ||||||| || || ||  | || |||||||||||||| ||||||||| |||||||||||||||||||||||||||||||| |||||||  | || ||| |  
gtacacataatttgccttttctttcaagctaacttgacatacatttgttgacaatcatttagtgaacctaaaatattcccctttaaaatgccttcatctcatatttctgtctgattgatgtagGTTGACACCACCATACTTGGCCTTGATGACGAGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATATATGTTTTTAGCAAGGATGTAATGCTTC

upper sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 3
------------gtaagcccatataa------catgtattatatgttgttattta--tctggaaattattacctgagcaattgcttaaaaatgccactagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAACGTGATGTTAG
             ||| ||   | |       ||| | || | ||||   |   |   ||  ||||   | |       |||| |     ||     |||||||| || || ||  | || |||||||||| ||| ||||||||| ||||||||||||||||||||||||| |||||| | |||||| | || ||| |  
ttctataggattttaatccttcaaagttcctccattttttctttgttccaaaggagcccttaaaatgcattcacatcatattgttgtttgattgatgtagGTTGACACCACCATACTTGGCCTTGATGACGTGAGGGCAAAGGAAATGCCTTATATTGCTAGCATGGGTATCTATGTTTTCAGCAAAGATGTAATGCTTC

upper sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G106213_T02 (Zea mays), 3'ss of exon 3
--------------------gtaagcccatataacatgtattata--tgttgttatttatctggaaatt--attacctgagcaa----ttgcttaaaa-atgccactagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAACGTGATGTTAG
                     | | || |  |   |||| |  |   ||||     |  | | |  |||  |||   | ||  |    ||||||     |       |||| || || || || ||||| ||||||   || || || || ||| |||||||||||||||| ||||| || |||||| |||||||| | |||||| |  
gtacaaatgtgataaactttttgaccctagttcttatgtctcctgattgttagagctccttttgcgattgcattttttcagttaagttttgcttgttttaccttttcagGTAGACACCACTATATTGGGCCTTGATCCTGAAAGGGCCAAAGAACTGCCTTATATTGCTAGTATGGGAATCTATGTTTTTAGCAAAGATGTGATGCTTC

upper sequence: GLYMA02G47460.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------gtaagcccatataa-catgtattatatgttgttatttatctggaaattattacctgagcaattgc---------ttaaaaatgccact----agGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAACGTGATGTTAG
                                   || ||   | |   | | |||| ||   | || |   | |  |  |  |||     ||   | |         |   || ||   ||    |||| |||||||| ||  ||||||||||||| |||||||| || ||| ||||||| |||||||| |||||||||||||| || |||||| | ||||||||||
gtagatgatatttgaaataaacattcgtattaatttatgcttttgtgttcctctattctacaattttgtagttttaaagttggttaagaaggctgatacgttttcctttctgaactgttccttttaagGTCGATACTACCATCCTGGGTCTTGATGATGAGAGAGCTAAAGAAATGCCTTACATTGCTAGTATGGGTATATATGTCGTCAGCAAAGATGTGATGTTAG

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|208055837|gb|GD854160.1|GD854160
EST:     AAAGCTATGAAG                         GTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCT
genomic: AAAGCTATGAAGgtaagcccat ... atgccactagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCT
EST: gi|298174060|gb|HO017396.1|HO017396
EST:     TAATTGAATTTGCTGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAG                         GTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCT
genomic: TAATTGAATTCGCCGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAGgtaagcccat ... atgccactagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCT
EST: gi|16277058|gb|BI942182.1|BI942182
EST:     TAATTGAATTCGCCGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAG                         GTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCT
genomic: TAATTGAATTCGCCGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAGgtaagcccat ... atgccactagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCT
EST: gi|46492701|gb|CN472257.1|CN472257
EST:     TAATTGAATTTGCTGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAG                         GTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAAGAAATGCCT
genomic: TAATTGAATTCGCCGAAAAGCCAAAAGGAGAACAGTTGAAAGCTATGAAGgtaagcccat ... atgccactagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgttatttatctggaaattattacctgagcaattgcttaaaaatgccactagGTTGATACTACAATTTTGGGTCTTGATGACGAGAGAGCAAAGGAATTGCCTTATATTGCTAGCATGGGTATATATGTTGTTAGCAAAAACGTGATGTTAG
     ttatttatctggaaat  TA-rich tract