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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctactttttattagtaatccattgcatggtagaacaaacatccttcttcctcaaactaaacttttcttttttccccaagttattgtcatgatttattgtcattattctctccgtcgtttcaaaagacatttcttgacctactgtatctctttgttttgcagCCTGTTTATCTTGACATTCTCATGCCACCATTAATTGAGAAATGGCAGCAACTTTCAAATTCAGACAAAGATCTTTTTCCACTCCTGGAATGCTTTACAT

Basic information

species Glycine max
transcript GLYMA10G42960.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G376731_T01 (Zea mays), 3'ss of exon 17
gtatgctactttttattagtaatccattgcatggtagaacaaacatccttcttcctcaaactaaacttttcttttttccccaagttattgtcatgatttattgtcattattctctccgtcgtttcaaaagacatttcttgacctactgtatctctt----tgttttgcagCCTGTTTATCTTGACATTCTCATGCCACCATTAATTGAGAAATGGCAGCAACTTTCAAATTCAGACAAAGATCTTTTTCCACTCCTGGAATGCTTTACAT
   |||||   | | | |  ||||| |           ||     |  || |   |||  | ||||| || |  ||    ||       ||   || |  |||     ||  ||||     |  |||       || |  |  ||||   |||  |    || | ||||| |    ||||| || ||  | ||||| || || ||   ||| |||||||||||||| ||||| ||||||||||| ||||||||||| |||||||||||||
--gtgctaacatct-tcacaaatccttc----------actgttttttttgtatatcatgcaaaactattttggttctttcaga-----gttcagactccttggtgccatgatctcttgtatgccaat---tccttgtgaagatactaattcttctaagttgctatgcagGCAAAATATCTAGATATATTTATGCCGCCTTTGATCACGAAGTGGCAGCAACTTTCCAATTCTGACAAAGATCTATTTCCACTCCTTGAATGCTTTACAT

upper sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 17
lower sequence: AT2G16950.1 (Arabidopsis thaliana), 3'ss of exon 17
gtatgctactttttattagtaatccattgcatggtagaacaaacatccttcttcctcaaactaaacttttcttttttccccaagttattgtcatgatttattgtcattattctctccgtcgtttcaaaagacattt-cttgacctactgta--tctctttgttttgcagCCTGTTTATCTTGACATTCTCATGCCACCATTAATTGAGAAATGGCAGCAACTTTCAAATTCAGACAAAGATCTTTTTCCACTCCTGGAATGCTTTACAT
                                 ||| |||||      || | |   |   ||| ||  |||| |      |  |  ||| |  |  || ||   ||   | |    || ||   | |||   ||| |||  ||||||  |  |  || | |  ||||||||| ||||||||| ||||| ||||| ||| |  |||  || ||||| ||||||||||||||||| |||||||| |||||| | || || ||||||||||
---------------------------------gtataacaattgggtttgtaca--aggttaatctgatcttgtaaatttagctccttgactagtgtttttcaaatccatatactggtggtagtataagtttttttctttgcctacttaagtttcctctctcatgcagCCTGCTTATCTTGAGATTCTGATGCCTCCACTGGTTGCAAAGTGGCAACAACTTTCAAATTCAGATAAAGATCTATTTCCATTGCTAGAGTGCTTTACAT

upper sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 17
gtatgctactttttattagtaatccattgcatggtagaacaaacatccttcttcctcaaactaaacttttcttttttccccaagttattgtcatgatttattgtcattattctctccgtcgtttcaaaagacatttcttgacctact--gtatctctttgttttgcagCCTGTTTATCTTGACATTCTCATGCCACCATTAATTGAGAAATGGCAGCAACTTTCAAATTCAGACAAAGATCTTTTTCCACTCCTGGAATGCTTTACAT
                                                                                                  || | | |||  |       |  | | |||  ||| | ||   |  | |  ||||||  || ||||| ||||    |||||||| ||||| ||||| ||||| || |  || |||||||||||||| |||||||| |||||  |||| ||||| ||||| ||||||||||
-------------------------------------------------------------------------------------------------gtactttaattcatgctgtgattatgttaaat-acaatgctctgctaattcagtatcttgtttttttgtagCCCACCTATCTTGATATTCTAATGCCGCCATTGATCGCAAAGTGGCAGCAACTTTCTAATTCAGATAAAGACATTTTCCCACTGCTGGAGTGCTTTACAT

upper sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 17
gtatgctactttttattagtaatccattgcatggtagaacaaacatccttcttcctcaaactaaacttttcttttttccccaagttattgtcatgatttattgtcattattctctccgtcgtttcaaaagacatttcttgacctactgtatctctttgttttgcagCCTGTTTATCTTGACATTCTCATGCCACCATTAATTGAGAAATGGCAGCAACTTTCAAATTCAGACAAAGATCTTTTTCCACTCCTGGAATGCTTTACAT
||| ||  ||| |||||  |        |||||            |  ||||| |      |   | ||  | |      ||       | ||  ||   | ||  || |  ||| |    |    | | |   | ||    |   | | |   ||   |   ||| |    || ||||| ||||| ||||| ||||||||||  || ||||||| | |||| |||||||||||||| || |||||||| || || ||||||||||
gtaagc--cttcttatttttgg------gcatgagttggtgtttgtttttctttcctttggtgctccttgatgtggaaatcagag-ggggacagaatgcttggtgtttttgttcttcacgatcaggacacaagctactaacgcccatcttttgattctatacacagTCCAGATACCTTGATATTCTGATGCCTCCATTAATTGCAAAGTGGCAGCTAGTTTCCAATTCAGACAAAGACCTCTTTCCACTGCTAGAGTGCTTTACAT

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|192327364|gb|FK019581.1|FK019581
EST:     ATGATGCTATTGGAACTCTAGCTGAAGCTGTTGGAGGAGAGCTGAATCAG                         CCTGTTTATCTTGACATTCTCATGCCACCATTAATTGAGAAATGGCAGCAA
genomic: ATGATGCTATTGGAACTCTAGCTGAAGCTGTTGGAGGAGAGCTGAATCAGgtatgctact ... tgttttgcagCCTGTTTATCTTGACATTCTCATGCCACCATTAATTGAGAAATGGCAGCAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctccgtcgtttcaaaagacatttcttgacctactgtatctctttgttttgcagCCTGTTTATCTTGACATTCTCATGCCACCATTAATTGAGAAATGGCAGCAACTTTCAAATTCAGACAAAGATCTTTTTCCACTCCTGGAATGCTTTACAT
                        tcttgac  putative branch site (score: 3)
                                     tatctctttgtttt  putative PPT
          tttcaaaa  TA-rich tract