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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaatatttataaatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA

Basic information

species Glycine max
transcript GLYMA15G02640.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 3
gtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaatatttataaatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
|||      |   |   |    || |     ||   ||| |   |        | ||   | ||   ||| |  ||||    | ||||||| ||||| ||||| ||||| ||||||||||| || ||||| || |  |||||||||||||| ||||| ||  |||| ||||| || ||||||||||
gtatattgtacaagactaac--tgcttagtgaagtacctgtaatttctgttgtttaac--taatt--tgtcttgtcatgcgattagTTTGATTATCTGAAGAGCTTGGAAATTGAAGAGAAGATTAACAAGATAAAGTGGTGCCAAACAGCAAATGGAGCATTGTTTCTTCTGTCCACAAATGATA

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 3
------------gtaatcatcatttggtca-gtaatgttgc-accaacatcctatgggtcagaagagtcaatatttataaatgtatgatca-ttgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
             | ||  |  | || ||  ||  ||||    |    ||    ||  |  | | | |||  || |||   | | |||| |  ||||  ||||||| || || || |||||||| || || ||||| |||||||| ||||| |||||||| ||||| |||  | | || | |||||| |||||||||||||
atgaagcattacattattgtgctatgctcttgttttgttcttgcttgaattacttgcatatggaaactca-catctatgtttttttgatgaactgttctagTTTGATTACCTCAAAAGTTTGGAAATAGAGGAGAAGATCAACAAGATCAGGTGGTGCCAGACAGCCAATAATTCACTCTCCCTTCTGTCTACAAATGATA

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 3
gta-atcatcatttggtcagtaatgttgcaccaac-atcctatgggtcagaagagtcaatatttataaatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
||| ||  |||        || | || | |  |    || | ||  | |   ||   | |   || |    | |  | || |  ||||||||| ||||||||||| ||||| ||||||||||| || ||| |||| | |||||| ||| |||| ||||||||  |||  ||||| || |||||||| |
gtatattctcacaaacattgttaagtggtattatttgtcttctgaattacttgaa--atttgataaagtgatgttgttatggaatcagTTTGATTATCTTAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAATGGTGTCAAGCAGCAAATGGTGCATTGTATCTTCTATCCACAAATGACA

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 3
---------gtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaaga--gtcaatatttata---aatgtatgatcattgttt-cagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
           ||    || |     ||| | | || |   | || ||          | |  || ||||||| |     |  | ||  || ||  |  |||||||||| || || |||||||| || |||||||| || ||||| ||||  |||||||||||| | ||   ||| || || ||  | ||||||||||| |
atacatagtccaaatgacactcc-caagtgaagctgtagttatatactggaatatgtgaaattgtgaatatttttttctgacttctgtgcaatgcatgtagTTTGACTACCTAAAAAGTTTGGAAATAGAAGAGAAGATTAACAAGATCAAGTGGTGCCAAACAACCAACAATGCACTCTTTCTCTTGTCTACAAATGACA

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
gta-atcatcatttggtcagtaatgttgcaccaacatcctatgg-gtcagaagagtcaatatttataaatgtatgatcat-tgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
||| || |  | ||  |||  |   || |||  ||     || | ||     |||  | |   ||    ||  |    || ||||||||||||||||||| |||||||||||||| || |||||||||||||||||||||||||| ||  |||||||||||||  |||| || ||||||||||| ||||
gtacattaaaactta-tcaccag-atttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 5
gtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaa-tatttataaatgtatgatcattgttt--cagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
||| |  | ||||  || ||  | || |     || |   | ||  | |    | |  | | | |  |||    ||| ||||||  |||||||| || || |||||||||||||| || |||||||| |||||||| |||||||| |||||||| ||||| || || || || || || || |||||||
gtatt--tgatttactctgttttctt-cttactcagctatttggctataccttttatctgtcttttcatgctctatccttgtttaccagTTTGATTACCTCAAGAGTTTGGAGATAGAGGAGAAAATTAACAAAATTAGATGGTGTCAAACAGCAAATGGAGCTCTTTTTCTCCTCTCGACCAATGATA

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
---------------gtaatcatcatttggtcagtaatgttgcaccaacatcctat-----gggtcagaagagtcaatatttata----aatgtatgatcattgt-ttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
               || |        ||   |||    |||||||| | |    |     || || |||  ||    ||| ||     | ||  |  ||  |||  ||||||||||||||| ||||| ||||| || || ||||||||||| || |||||||||||||| ||||| |||||||||||||| ||||| ||||| |||||||
gtatttctttcatcagttactcctgcctga--agtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S301_53V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------gtaat-catcatttggtcagtaatgttgcaccaacatccta--tgggtcagaagagtcaatatttataaatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
           |  || ||  ||   ||   |  ||||||||     | | |  |   ||  |    |   |  || |     |||| |   |  | |||||||| ||| | ||||||||||| || || ||||| ||||| ||||| || |||||||| || ||||||| ||| | |||||| |||||||||||||| |
gggattgttctgagatacagtatggcgttgattttgttgcacttcgtttccagttctatcttactgatgcctgcttttttgaatatgtttggttatgcagTTTGATTATTTGAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGGTGGTGCCAGACTGCTAATGCTGCTCAGTTCCTACTTTCTACAAATGACA

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S10_312V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------------------------------------gtaatcat-catttggtcagtaatgttgcaccaacatcctatgggtcagaagagtc-aatatttataaatgtatgatc----attgttt---cagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
                                                                                 ||    ||      |||     || ||   |  |  |  | | |    ||  |||   || | |  || ||| |  |     | | |||   |||||||| ||  | || |||||||| ||||| ||||| ||||| ||||||||||||||| | ||  ||||||||||||  || || || || ||||||||||
gtacgttcttgcacttctcttgagcgttagatttccatgtttcactttatttttggtttctacgtgtcacctcaatcataagtttctatgtgccaggtggagcatttttttctgatttgttgtagcattgacaagtttgatgtcttgaactgttttgtttggtactttttgtgcagTTTGATTACTTGAAAAGTTTGGAAATTGAGGAGAAGATCAATAAAATCAGATGGTGCGACACTACTAATGGTGCCCGATTGCTGCTCTCCACAAATGATA

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S100_124V6.1 (Physcomitrella patens), 3'ss of exon 3
------------gtaatcatcatttggtcagtaatgttgcaccaac------atcctatgggtcagaagagtcaatatttataaatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
             |  |   |  |    ||||    || |||          |||||||   | |  |         ||| | |||||||  |  || |  ||||| || || || ||||||||||| || || ||||| ||||||||||| ||||||||||| ||  | |||| ||||| ||| || |||||||||||||| |
tgtgtagggatactgtttgacggtaatccagttgcattacacttgttggtcaatcctat--tttacgaacacgtgcttttctgaatgtatt-ttgttatg-cagTTCGATTACCTGAAGAGTTTGGAAATAGAGGAGAAGATCAACAAAATAAGATGGTGCCAGACCACCAATGCTGCCCAGTTTCTACTTTCTACAAATGACA

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ09063 (Selaginella moellendorffii), 3'ss of exon 3
gtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaatattta--taaatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
                          |  |       |||| | | |   | ||  ||  |    ||  | | |  |   |    ||||||||||| || |||||  ||||||| || || || |||||||||||||||||||| || || ||||| || || |  ||  || | || || ||||| |
--------------------------gtgcgcttgctctatcgttgaagcgtgttgatgctacattacttttgttttggcttccccagTTTGACTACCTCAAGAGCCTGGAGATAGAGGAAAAGATCAACAAAATCAGATGGTGTCACACGGCTAACGGCGCTCGTTTTGTTTTATCCACTAATGACA

upper sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ08844 (Selaginella moellendorffii), 3'ss of exon 3
gtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaatatt-tataaatgtatgatcattgtttc---agTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
                          |  |       |||| | | |   | ||  ||  |  || | | | |  |  | | |||   |||||||||| || |||||  ||||||| || || || |||||||||||||||||||| || || ||||| || || |  ||  || | || || ||||| |
--------------------------gtgcgcttgctctatcgttgaagcgtgttgatgctacattactttttttttttggcttccccagTTTGACTACCTCAAGAGCCTGGAGATAGAGGAAAAGATCAACAAAATCAGATGGTGTCACACGGCTAACGGCGCTCGTTTTGTTTTATCCACTAATGACA

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|14258666|gb|BG881574.1|BG881574
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG                         TTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGA
EST: gi|24205994|gb|BU965247.1|BU965247
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG                         TTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacatcctatgggtcagaagagtcaatatttataaatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA
                                              ttgtttc  CT-rich tract
                        aatatttataaatgta  TA-rich tract