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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaaatttgtccctctccaagtgtatattgatctcacctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG

Basic information

species Glycine max
transcript GLYMA05G03270.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 3'ss of exon 22
gttaaatttgtccctctccaagtgtatattgatctcacctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
       |  ||||| |  |    |||   ||  ||    || ||    |  ||   |   |   |  || |  |  |    | ||   ||||||||||| ||||||||||||||||| |||||||| || || || || || |||||| | |||||||| || ||||| ||||||
------gtactccctttatagagctatgcagagttccagattgttcacatcttgaatactcc---ttttgctgatatctgattctga--cagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGCAAAATTGCTCCTAGTGTCATTTTTGTGGATGAG

upper sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 22
gttaaatttgtccctctccaagtgt-atattgatctcacctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
      | ||      ||||| | |   ||| ||      |  | |    |  ||||  | ||||  |    |  ||    |  |   ||||||||||||| || || ||||||||||| ||||||||||||||  | || ||||||||  | || || ||||||||  ||||||||
-----gtatgatggcatccaaattttgcattaatgaggtgtacagtgtacta-tgtgattctcaaagctaaatgctgttttttctactttcagTGGTTTGGCGAAGGAGAGAAATATGTAAAAGCTGTTTTCTCATTAGCAAGTAAAATAGCTCCAAGCGTTATATTCATTGATGAG

upper sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
gttaaatttgtccctctccaagtgtatattgatctcacct-ttattagtttgctgtgcatatcaactca-tgttcttgcccctct--ttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
         || | | | |||   |||| | |||     | ||     ||||  || | ||| |  |   || | |   |||| |   |    ||||||||||| ||||| || |||||||||||||||||||| || || || || |||||||| ||||||||||| || || ||||||
---------gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
gttaaatttgtccctctccaagtgtatattgatctcacctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
       || |  | |   | | | | | ||||   |  || | || | |     |  || | | |  | |  |  |          ||||||||||||| || || ||||| ||||| || ||||||||||| || || ||||||||  |||| |||||||||||| ||||||||
----gtattatttcacctaatgggca-actgatgaga--ttcactactgtctcaaggctaaccagtggtttgttaact---------ttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G354532_T01 (Zea mays), 3'ss of exon 1
gttaaatttgtccctctccaagtgtatattgatctcacctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
                          |||| || ||||||  | | |    |||   | ||  |||  |||       |          ||||||||||| || || ||||| ||||| || ||||||||||| || || ||||||||  |||| |||||||||||| ||||||||
-------------------------gtatt-atttcacct--aatgggcaactgatgagattcactactgtctcaagGCTAAC------CAGTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 2
gttaaatttgtccctctccaagtgtatattgatctcacctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
       || |  | |   | | | | | ||||   |  || | || | |     |  || | | |  | |  |  |          ||||||||||||| || || ||||| ||||| || | ||||||||| || || ||||||||  |||| |||||||||||| ||||||||
----gtattatttcacctaatgggca-actgatgaga--ttcactactgtctcaaggctaaccagtggtttgttaact---------ttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGTTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G052403_T01 (Zea mays), 3'ss of exon 13
gttaaatttgtccctctccaagtgtatattgatctcacc-----tttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
                     || |   |||| ||  |       | || || ||    ||  | ||||  |       ||   |  ||   ||||||||||||| || || ||||| ||||| || ||||||||||| || || ||||||||  | || |||||||||||| | ||||||
---------------------gtattatttgacctagcgggcaactgatgagattcacttgtgtctcaagcctaaccagtggttcgtttactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCCCCCAGTGTTATATTTATCGATGAG

upper sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G170037_T01 (Zea mays), 3'ss of exon 4
gttaaatttgtccctctccaagtgtatattgatctcacctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTT-GTTGATGAG---------------
       || |  | |   | | | | | ||||   |  || | || | |     |  || | | |  | |  |  |          ||||||||||||| || || ||||| ||||| || ||| ||||||| || || ||||||||  |||| ||||||||||||  ||||||||               
----gtattatttcacctaatgggca-actgatgaga--ttcactactgtctcaaggctaaccagtggtttgttaact---------ttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTATTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTTATTGATGAGGTATGCAAGCACACA

upper sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
lower sequence: AT1G62130.1 (Arabidopsis thaliana), 3'ss of exon 21
gttaaatttgtccctctccaagtgtatattgatctcacctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
  |||     |  |  |  ||   |  | |   |  |  | ||   |    || |   |   ||||  |||||||    |||  |  | ||||||||| | ||||||||||||||||| |||||||| || ||  |||| ||||||||||| || ||  |||| ||| | || |||
-gtaacagaatatccttgaaaagttggactctaccaatttatacacggaatctct-tgttcaaacttgtgttctt----ctcaatattgcagTGGTTTAGTGAGGGTGAGAAATATGTCAAAGCTGTCTTTTCGTTGGCTAGTAAAATTTCCCCAAGCATTATCTTTTTGGACGAG

upper sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
lower sequence: AT4G24860.1 (Arabidopsis thaliana), 3'ss of exon 21
gttaaatttgt-ccctctccaagtgtatattgatctcacctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
  ||| |   | | || |  ||   | ||  ||| | ||       |  ||  | |       ||||  |||||||    ||   | || ||||||||||| ||||||||||| ||||| |||||||| || ||| |||| |||||||| || ||||| ||||| ||||| || |||
-gtaactgaatactctatgaaaagttctaccgattt-acacacgggatcttttttt-----caaacttgtgttctt----cttaatactgcagTGGTTTGGTGAGGGTGAGAAGTATGTCAAAGCTGTCTTTTCTTTGGCCAGTAAAATGTCCCCTAGCGTTATCTTTGTGGACGAG

upper sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
---------gttaaatttgtccctctccaagtgtatattgatctc-acctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
         | ||| |   | | | |     | |   |||||||| |   |   | |||   | |   | ||    |  |||  |   | |  ||| | ||||||||||| ||||| ||||| |||||||| || |||||||| || || ||||||||| | ||||||||| ||||||| ||||| 
gttatcattgataagtagcttcttttttc--tatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA

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|17022161|gb|BM093195.1|BM093195
EST:     AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAG                         TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAGgttaaatttg ... tttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|27425980|gb|CA937500.1|CA937500
EST:     AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAG                         TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAGgttaaatttg ... tttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|26268110|gb|CA819173.1|CA819173
EST:     AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAG                         TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAGgttaaatttg ... tttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|10844689|gb|BF067915.1|BF067915
EST:     AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAG                         TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAGgttaaatttg ... tttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|207835662|gb|GD805659.1|GD805659
EST:     AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAATATTACCTCTAAG                         TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAGgttaaatttg ... tttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|192328312|gb|FK020023.1|FK020023
EST:     AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGCATTACCTCTAAG                         TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAGgttaaatttg ... tttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|26048337|gb|CA784840.1|CA784840
EST:     AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAG                         TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAGgttaaatttg ... tttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
EST: gi|208092591|gb|GD885568.1|GD885568
EST:     AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAATATTACCTCTAAG                         TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT
genomic: AAGCTGGTGCAAACTTCATCAACATTTCTATGTCAAGTATTACCTCTAAGgttaaatttg ... tttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG
                               tgttcttgcccctctt  CT-rich tract
     attagttt  TA-rich tract