Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaatagagatttttctttgttttttaactccttgaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG

Basic information

species Glycine max
transcript GLYMA15G04500.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os03g16980.3 (Oryza sativa), 3'ss of exon 7
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaatagagatttttctttgttttttaactccttgaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
          ||  | ||||   | | ||  ||| | || ||||    |   ||    || |   || | |||  |              | || ||| |  |  || ||    |||| || || ||||| || || || ||||| ||||||||  | ||||| |||||||||||||||||||| || |||||||||||||| ||  | ||
----------gtaatatttttagt-tcatacctttttgtcttgt----gatgtactggattgtagttctccttaat--------------aagtattt-tccaatctatctctgtagAGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTTGTTAGTAACTTCATTGCTCAGGCCGTACG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 8
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaata-gagatttttctttgttttttaact-ccttgaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
|||||   |  ||||      |||| | | |  | |    |  |   || | | |  | |  | |||   |||  | || | |  |  | | ||   | | ||||  || |     ||||||| || ||||| || || || ||||| ||||||||| | ||||| ||||| ||||| |||||||| ||||||||||||||||| ||  ||||
gtaatacttcatcttgca---cttaaactgtaatattagctcat---agccctctttattgtgtgataactctaggcttatgatttgtcctcagcaatatttataatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaata-gagatttttctttgttttttaactcctt--gaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
||||    |  |||||     |||| | ||   | |   |   |   || | | |    || | |||   |||  | || | |  |  ||   |   || | |||   || |     ||||||| || ||||| || || |||||||| ||||| ||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  ||||
gtaacacttcatctttca---cttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaata-gagatttttctttgttttttaactccttgaggtgtttatatatc--ctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACC-ACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
||||    |  |||||     |||| | ||   | |   |   |   || | | |    || | |||   |||  | || | |  |  ||   |    ||| ||||  || |     ||||||| || ||||| || || |||||||| ||||| || | | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  ||||
gtaacacttcatctttca---cttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G157772_T02 (Zea mays), 3'ss of exon 4
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaatagagatttttctttgttttttaactccttgaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
        ||    ||   |  |  ||  |  |   | | ||  ||| |  ||| |     | | || |  ||| ||| |||||        || |||||      | ||    ||||||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  ||||
------acttaaacttcaatattagtagctcatagccctctttgttatgagataact--ctgggcttatgatttttttcttaac-------agtatttatcatctatgtc--tgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaata-gagatttttctttgttttttaactcctt--gaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
||||    |  |||||     |||| | ||   | |   |   |   || | | |    || |||||   |||  | || | |  |  ||   |   || | |||   || |     ||||||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  ||||
gtaacacttcatctttca---cttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatcatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G300412_T01 (Zea mays), 3'ss of exon 14
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaata-gagatttttctttgttttttaactccttg---aggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
||||    |  |||||     |||| | ||   | |   |   |   || | | |    || | |||   |||  | || | |  |  ||    |   || | |||   || |     ||||||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  ||||
gtaacacttcatctttca---cttaaacttcaatattagtagctcatagtcctctttgttatgtgataactctgggcttatgattttttttcttaacagtgtttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaata-gagatttttctttgttttttaactcct-tgaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
||||    |  |||||     |||| | ||   | |   |   |   || | | |    || | |||   |||  | || | |  |  | | |   || | |||   || |     ||||||| || ||||| || || || ||||| ||||| ||  | ||||| ||||||||||| |||||||| ||||||||||||||||| ||  ||||
gtaacacttcatctttca---cttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgattttttattaacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaatagagatttttctttgttttttaactccttgaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
                |     | || | |  ||  |  |||  || |    | |        |||||    || ||   | | |  ||      | ||| | ||    ||   |||| |||||||| || || || || ||||||||||| || || ||||| ||||||||||| || ||||| ||||||||||||||||| || ||  |
---------------gtaaaattaatcactcttttaccattttcttgaaaacttt--------gatttaagcttattggctgattagttattacttctat-tgtctggccattgtagAGATACGCATAGCGAGGATATTCAACACATATGGTCCTCGTATGAACATTGATGATGGTCGCGTTGTGAGCAACTTCATTGCTCAGGCTCTCAG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaatagagat-ttttctttgttttttaactccttgaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
        |    |   ||| || |   | ||   ||   ||  |    | |  |   ||  | || || || ||||  ||||  ||||| |  ||||| | | || | |     ||||||| |||||||| |||||||| ||||| ||||| ||||||||||| || |||||||| |||||||| |||||||||||||| |||||||| ||
-------gtaagttgcattttctcaggctctcgcttcaactttctccctgtaatttgcatcaacatattctcattgtccttta-ttccttaaattgtttttgtttcttctt--tgtagAAATCCGCATTGCTAGAATCTTCAACACTTATGGTCCACGCATGAACATCGATGATGGCCGTGTTGTAAGCAACTTCATTGCACAAGCACTCCG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaatagagatttttctttgttttttaactcctt-gaggtgtttatatatcctttcaacat----agAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
                            |   || ||   ||   |||      | ||  |    ||||||||| |    | | |||||  || |  | ||    |  ||   |||    |||||| |||||||| |||||||| ||||||||||| || || ||||| || ||||||||||||||||| ||||||||||||||||||||||| ||
---------------------------gtcagttttctacttccctaaactcactgcatcact--tttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 8
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaatagagatttttctttgttttttaactccttgaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
                         ||| || |     |||| ||| |  | |   |||     | |     |    |||||| |   |  | ||||| | |||  |||  |||  |||||||||||||| ||||| || ||||||||||| || |||||||||||||||||||| |||||||||||||| ||||| ||||||||||| ||
------------------------gtaacttttgtgtttttttttttaatcctgaacaaacttcaatgaatatgaagttttaa-tatgtatgttgtttctttatattttggaca--gAAATACGCATTGCTAGAATTTTCAACACATATGGGCCCCGCATGAATATTGATGATGGACGTGTTGTCAGCAATTTCATAGCTCAAGCACTTCG

upper sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 3'ss of exon 8
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaatagagatttttctttgttttttaactccttgaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
          |  |    |    | ||  | ||    ||  |           || | |   || ||     ||| |  | | |||       || ||   ||| | |       |||||| ||  | ||| |||| |||||||| ||||| || ||||||||||| || |||||||| || |||||||| || |||||||||||| |  |
--------aaggatgcgatgaaatgtagct-ctgagtgtagtagcatcactgaattccaagaagcttggatcttggtcataatctc-------tgctttgctattcgtg-gtggcagAAATCCGTGTAGCACGAATTTTTAACACCTATGGGCCTCGCATGAATATCGACGATGGGCGAGTAGTCAGCAATTTTATTGCTCAAGCATTAAG

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|10231271|gb|BE800168.1|BE800168
EST:     ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTG                         AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTG
genomic: ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTGgtaatttatt ... ttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTG
EST: gi|151412093|gb|EV281905.1|EV281905
EST:     ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTG                         AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTG
genomic: ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTGgtaatttatt ... ttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTG
EST: gi|192316740|gb|FK006443.1|FK006443
EST:     ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTG                         AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTG
genomic: ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTGgtaatttatt ... ttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTG
EST: gi|192316741|gb|FK006444.1|FK006444
EST:     ACGGGTGGCTGAGACATTGATGTTTGATTACCATAG-CAGCATGGAATTG                         AAATACGCATTGCAAGAATCTTTAACACATATGGAC-ACGCATGAATAT-G
genomic: ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTGgtaatttatt ... ttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTG
EST: gi|192317198|gb|FK007909.1|FK007909
EST:     ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTG                         AAATACGCATTGCAAGAATCTTTAA
genomic: ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTGgtaatttatt ... ttcaacatagAAATACGCATTGCAAGAATCTTTAA
EST: gi|19453064|gb|BM954474.1|BM954474
EST:     ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTG                         AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTG
genomic: ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTGgtaatttatt ... ttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTG
EST: gi|192296657|gb|FG991225.1|FG991225
EST:     ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTG                         AAATACGCATTGCAAGAATCTTTAACACATATAGACCACGCATGAATATTG
genomic: ACGGGTGGCTGAGACATTGATGTTTGATTACCATAGGCAGCATGGAATTGgtaatttatt ... ttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatttttctttgttttttaactccttgaggtgtttatatatcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG
               ttttaac  putative branch site (score: 2)
                                       tatcctttc  putative PPT
     tttctttgttttttaa  TA-rich tract