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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaaatttgtctctctctaagtgtatattgatttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG

Basic information

species Glycine max
transcript GLYMA17G13850.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 3'ss of exon 22
gttaaatttgtctctctctaagtgtatattgatttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
       |  || || | ||    |||   || |||    || ||    |  ||   |  |    | ||| ||    |||  ||    ||||||||||| ||||||||||||||||| |||||||| || || || || || |||||| | |||||||| || ||||| ||||||
------gtactccctttatagagctatgcagagttccagattgttcacatcttgaatactc----cttttgctgatatctgattctgacagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGCAAAATTGCTCCTAGTGTCATTTTTGTGGATGAG

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 22
gttaaatttgtctctctctaagtgtatattgatttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
       |  |  |   | || | |  ||| ||      |  | |    |          |||  |    |  ||  | || |   ||||||||||||| || || ||||||||||| ||||||||||||||  | || ||||||||  | || || ||||||||  ||||||||
----gtatgatggcatccaaattttgcattaatgaggtgtacagtgtactatgtgattctcaaagctaaatgctgttttttctactttcagTGGTTTGGCGAAGGAGAGAAATATGTAAAAGCTGTTTTCTCATTAGCAAGTAAAATAGCTCCAAGCGTTATATTCATTGATGAG

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 22
gttaaatttgtctctctctaagtgtatattgat--ttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG----------------
         || | |  |||| ||  |  |  |  | ||   || |   |||||  |     || || |     |||  |    || |  |||||||||||||| || ||||| | |||||||||||| || || ||||| || |||||| | || |||||||| || || ||||||                
---------gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaaca-ttgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAGGTAAGTAAATTGTAAT

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 3'ss of exon 22
gttaaatttgtctctctctaagtgtatattg--atttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
         || | |  |||| ||  |  |   | | ||   || |   |||||  |     || || |     |||  |    || |  |||||||||||||| || ||||| | |||||||||||| || || ||||| || |||||| | || |||||||| || || ||||||
---------gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaaca-ttgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
gttaaatttgtctctctctaagtgtatattgatttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
       || | || |   | | | | | ||||   |  || | || | |     |  ||        ||| ||  ||        |||||||||||||||| || ||||| ||||| || ||||||||||| || || ||||||||  |||| |||||||||||| ||||||||
----gtattatttcacctaatgggca-actgatgaga--ttcactactgtctcaaggctaaccagtggtttgttaact--------ttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G354532_T01 (Zea mays), 3'ss of exon 1
gttaaatttgtctctctctaagtgtatattgatttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
                          |||| |||||||||  | | |    |||   ||   | ||| |    || |||         |||||||||||||| || ||||| ||||| || ||||||||||| || || ||||||||  |||| |||||||||||| ||||||||
-------------------------gtatt-atttcacct--aatgggcaactg---atgagattcactac--tgtctcaagGCTAACCAGTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
gttaaatttgtctctctctaagtgtatattgatttcacct-ttattagtttgctgtgcatacaactc----attttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
         ||   | |  ||   |||| | ||      | ||     ||||  || | ||  |||       ||||   ||| |   |    ||||||||||| ||||| || |||||||||||||||||||| || || || || |||||||| ||||||||||| || || ||||||
---------gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 2
gttaaatttgtctctctctaagtgtatattgatttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
       || | || |   | | | | | ||||   |  || | || | |     |  ||        ||| ||  ||        |||||||||||||||| || ||||| ||||| || | ||||||||| || || ||||||||  |||| |||||||||||| ||||||||
----gtattatttcacctaatgggca-actgatgaga--ttcactactgtctcaaggctaaccagtggtttgttaact--------ttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGTTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G052403_T01 (Zea mays), 3'ss of exon 13
gttaaatttgtctctctctaagtgtatattgatttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
       || | |  |     | | | | ||||   |  || | | || |     || ||  ||   |      |  || |||   |||||||||||||||| || ||||| ||||| || ||||||||||| || || ||||||||  | || |||||||||||| | ||||||
----gtattatttgacctagcgggca-actgatgaga--ttcacttgtgtctcaagccta--accagt------ggttcgtttactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCCCCCAGTGTTATATTTATCGATGAG

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G170037_T01 (Zea mays), 3'ss of exon 4
gttaaatttgtctctctctaagtgtatattgatttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTT-GTTGATGAG---------------
       || | || |   | | | | | ||||   |  || | || | |     |  ||        ||| ||  ||        |||||||||||||||| || ||||| ||||| || ||| ||||||| || || ||||||||  |||| ||||||||||||  ||||||||               
----gtattatttcacctaatgggca-actgatgaga--ttcactactgtctcaaggctaaccagtggtttgttaact--------ttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTATTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTTATTGATGAGGTATGCAAGCACACA

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: AT1G62130.1 (Arabidopsis thaliana), 3'ss of exon 21
gttaaatttgtctctctctaagtgtatattgatttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
  |||     | ||  |  ||   |  | |      |  | ||   |    || |   |  ||||  | |||||    ||   |  | ||||||||| ||||||||||||||||||| |||||||| || ||  |||| ||||||||||| || ||  |||| ||| | || |||
-gtaacagaatatccttgaaaagttggactctaccaatttatacacggaatctcttgttcaaacttgtgttctt----ctcaatattgcagTGGTTTAGTGAGGGTGAGAAATATGTCAAAGCTGTCTTTTCGTTGGCTAGTAAAATTTCCCCAAGCATTATCTTTTTGGACGAG

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: AT4G24860.1 (Arabidopsis thaliana), 3'ss of exon 21
gttaaatttgt-ctctctctaagtgtatattgatttcacctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
  ||| |   | |||| |  ||   | ||  |||||   |        | |  | | ||   ||||  | |||||    |||  | || ||||||||||||||||||||||| ||||| |||||||| || ||| |||| |||||||| || ||||| ||||| ||||| || |||
-gtaactgaatactctatgaaaagttctaccgatttacacacgg--gatctttttttca---aacttgtgttctt----cttaatactgcagTGGTTTGGTGAGGGTGAGAAGTATGTCAAAGCTGTCTTTTCTTTGGCCAGTAAAATGTCCCCTAGCGTTATCTTTGTGGACGAG

upper sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
------gttaa-atttgtctctctctaagtgtatattgatttcacct-----ttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
       || | |  |  ||   | |   | |   ||||| ||         || ||| |||  | |   | || ||  ||| ||   || || ||| | ||||||||||| ||||| ||||| |||||||| || |||||||| || || ||||||||| | ||||||||| ||||||| ||||| 
gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggttgttatttttttttttct-cagctggttt-ctcatct-ttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA

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|21995058|gb|BQ786586.1|BQ786586
EST:     AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAG                         TGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAGgttaaatttg ... tttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|16277629|gb|BI942480.1|BI942480
EST:     AAGCTGGTGCTAACTTCATCAACATGTCTATGTCAAGTATCACATCTAAG                         TGGTTTGGTGAAGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAGgttaaatttg ... tttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|16282350|gb|BI944969.1|BI944969
EST:     AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAG                         TGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAGgttaaatttg ... tttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|298164997|gb|HO011046.1|HO011046
EST:     AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAG                         TGGTTTGGTGAGGGTG
genomic: AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAGgttaaatttg ... tttgcttcagTGGTTTGGTGAGGGTG
EST: gi|254327049|gb|GR836658.1|GR836658
EST:     AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAG                         TGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAGgttaaatttg ... tttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|298163750|gb|HO012483.1|HO012483
EST:     AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAG                         TGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAGgttaaatttg ... tttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|15203099|gb|BI425867.1|BI425867
EST:     AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAG                         TGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAGgttaaatttg ... tttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|22522568|gb|BU081379.1|BU081379
EST:     AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAG                         TGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCTAACTTCATCAACATTTCTATGTCAAGTATCACATCTAAGgttaaatttg ... tttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
                           ctcattttcttgcctc  CT-rich tract
     tattagttt  TA-rich tract