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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA

Basic information

species Glycine max
transcript GLYMA13G42800.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 3
gtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
|||      |   |   |    || |     ||   ||| |   |        | ||    ||   ||| |  ||||    | ||||||| ||||| ||||| ||||||||||||||||| || ||||| || |  |||||||||| ||| ||||| ||  | || ||||| || ||||||||||
gtatattgtacaagactaac--tgcttagtgaagtacctgtaatttctgttgtttaac---taatttgtcttgtcatgcgattagTTTGATTATCTGAAGAGCTTGGAAATTGAAGAGAAGATTAACAAGATAAAGTGGTGCCAAACAGCAAATGGAGCATTGTTTCTTCTGTCCACAAATGATA

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 3
------------gtaatcatcatttggtca-gtaatgttgc-accaacatcctatgggtcagaagagtcaatatttataatgtat-gatca-ttgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
             | ||  |  | || ||  ||  ||||    |    ||    ||  |  | | | |||  || |||  | | | ||| |  ||||  ||||||| || || || ||||||||||| || ||||| |||||||| ||||| |||||||| | ||| |||  | | |||| |||||| |||||||||||||
atgaagcattacattattgtgctatgctcttgttttgttcttgcttgaattacttgcatatggaaactca-catctatgtttttttgatgaactgttctagTTTGATTACCTCAAAAGTTTGGAAATAGAGGAGAAGATCAACAAGATCAGGTGGTGCCAGACAGCCAATAATTCACTCTCCCTTCTGTCTACAAATGATA

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 3
gta-atcatcatttggtcagtaatgttgcaccaac-atcctatgggtcagaagagtcaatatttataatg-tatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
||| ||  |||        || | || | |  |    || | ||  | |   ||   | |   || | || | |  | || |  ||||||||| ||||||||||| ||||||||||||||||| || ||| |||| | |||||| |||  ||| ||||||||  | |  ||||| || |||||||| |
gtatattctcacaaacattgttaagtggtattatttgtcttctgaattacttgaa--atttgataaagtgatgttgttatggaatcagTTTGATTATCTTAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAATGGTGTCAAGCAGCAAATGGTGCATTGTATCTTCTATCCACAAATGACA

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 3
---------gtaatcatcatttggtcagtaatgttgcaccaacatcct---atgggtcagaa---gagtcaatatttataatgtatgatcattgttt-cagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
           ||    || |     ||| | | || |   | || ||   ||  || | |    || |   | ||| | |  | ||  || ||  |  |||||||||| || || ||||||||||| |||||||| || ||||| ||||  |||||||||| | | ||   ||| ||||| ||  | ||||||||||| |
atacatagtccaaatgacactcc-caagtgaagctgtagttatatactggaatatgtgaaattgtgaatatttttttctgacttctgtgcaatgcatgtagTTTGACTACCTAAAAAGTTTGGAAATAGAAGAGAAGATTAACAAGATCAAGTGGTGCCAAACAACCAACAATGCACTCTTTCTCTTGTCTACAAATGACA

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
gta-atcatcatttggtcagtaatgttgcaccaac-----atcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
||| || |  | ||  |||  |   || |||  ||     ||  | |   |      | ||||||    |  | |   |||  ||||||||||||||||||| ||||||||||| || || |||||||||||||||||||||||||| ||   ||||||||||||  | || || ||||||||||| ||||
gtacattaaaactta-tcaccag-atttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatc--tgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 5
gtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaata--tttataatgtatgatcattgttt--cagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
||| |  | ||||  || ||  | || |     || |   | ||  | |    | |      || | |||    ||| ||||||  |||||||| || || ||||||||||| || || |||||||| |||||||| |||||||| |||| ||| ||||| || || || || || || || |||||||
gtatt--tgatttactctgttttctt-cttactcagctatttggctataccttttatctgtcttttcatgctctatccttgtttaccagTTTGATTACCTCAAGAGTTTGGAGATAGAGGAGAAAATTAACAAAATTAGATGGTGTCAAACAGCAAATGGAGCTCTTTTTCTCCTCTCGACCAATGATA

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
---------------gtaatcatcatttggtcagtaatgttgcaccaacatcctat-----gggtcagaagagtcaatatttataatgtat-gatcattgttt-----cagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
               || |        ||   |||    |||||||| | |    |     || || |||  ||    ||| ||     || | | ||| | |     |||||||||||||| ||||| |||||||| || ||||||||||| || |||||||||||||| | ||| ||||||||||| || ||||| ||||| |||||||
gtatttctttcatcagttactcctgcctga--agtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S301_53V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------gtaat-catcatttggtcagtaatgttgcaccaacatccta----tgggtcagaagagtcaatatttataatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
           |  || ||  ||   ||   |  ||||||||     | | |    |   | |     | |    ||| | |  |||| |   |  | |||||||| ||| | |||||||||||||| || ||||| ||||| ||||| || |||||||| |  ||||||| ||| |  ||||| |||||||||||||| |
gggattgttctgagatacagtatggcgttgattttgttgcacttcgtttccagttctatcttactgatgcctgcttttttga-atatgtttggttatgcagTTTGATTATTTGAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGGTGGTGCCAGACTGCTAATGCTGCTCAGTTCCTACTTTCTACAAATGACA

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S10_312V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------------------------------------gtaatcat-catttggtcagtaatgttgcaccaacatcctatgggtcagaagagtc-aatatttataa------tgtatgatcattgttt--cagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
                                                                                 ||    ||      |||     || ||   |  |  |  | | |    ||  |||   || | |  ||      ||| || |  || ||   |||||||| ||  | || |||||||||||||| ||||| ||||| ||||||||||||||| | |   ||||||||||||  || || || || ||||||||||
gtacgttcttgcacttctcttgagcgttagatttccatgtttcactttatttttggtttctacgtgtcacctcaatcataagtttctatgtgccaggtggagcatttttttctgatttgttgtagcattgacaagtttgatgtcttgaactgttttgtttggtactttttgtgcagTTTGATTACTTGAAAAGTTTGGAAATTGAGGAGAAGATCAATAAAATCAGATGGTGCGACACTACTAATGGTGCCCGATTGCTGCTCTCCACAAATGATA

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S100_124V6.1 (Physcomitrella patens), 3'ss of exon 3
------------gtaatcatcatttggtcagtaatgttgcaccaac------atcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
             |  |   |  |    ||||    || |||          |||||||    | ||| |     | ||   |||||||  |  || |  ||||| || || || |||||||||||||| || ||||| ||||||||||| ||||||||||| |   | |||| |||||  || || |||||||||||||| |
tgtgtagggatactgtttgacggtaatccagttgcattacacttgttggtcaatcctattttac-gaacacgtgcttttctgaatgtatt-ttgttatg-cagTTCGATTACCTGAAGAGTTTGGAAATAGAGGAGAAGATCAACAAAATAAGATGGTGCCAGACCACCAATGCTGCCCAGTTTCTACTTTCTACAAATGACA

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S425_2V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------gtaatcatcatttggtcagtaatgttgcaccaacatcc-tatgggtcagaagagtcaatatt--tataatgtatgatcattgttt-cagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
           ||  |  | ||||  | |  ||  ||| |  ||  |   | ||      |    ||  | |   | |  | |||| |  || ||| |||||||| ||  | |||||||||||||| || ||||| ||||| ||||| ||||||||||| |  || ||||  || |  || || |||||||| |||||||
ttatttgttgtgttgttttgattttttgaaaaaaattgtaataattttaatttgaagttcactgatcgttttcactttcgtatatgcttcttctttgcagTTTGATTACTTAAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGATGGTGCCAGACTGCCAATGCCGCTCAGTTTCTACTTTCTACCAATGATA

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|193625400|gb|FK575218.1|FK575218
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
EST: gi|14258469|gb|BG881377.1|BG881377
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
EST: gi|15286432|gb|BI470323.1|BI470323
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
EST: gi|193333352|gb|FK300385.1|FK300385
EST:     GGCATCCTGAGCTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTT
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTT
EST: gi|208313579|gb|GE116513.1|GE116513
EST:     GGCATCCTGAGCTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAAG
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCA-G
EST: gi|209700206|gb|BW656297.1|BW656297
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
EST: gi|208243851|gb|GE040748.1|GE040748
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGG
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caacatcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA
                                              ttgtttc  CT-rich tract
                         aatatttataatgtat  TA-rich tract