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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatggtagctaggaactaagatgtagatttcacttttacaagatgctacctgagcatttttagaattaagttttatgcactcagatctttctttctctatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGCGAATGGCCATGGGCATGAAACCTGATCAGAAAGGTGTGCGCATTAGAAG

Basic information

species Glycine max
transcript GLYMA05G01930.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G01930.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g50880.1 (Oryza sativa), 3'ss of exon 3
gtaatatggtagctaggaactaagatgtagatttcacttttacaagatgctacctgagcatttttagaattaagttttatgcactcagatctttctttctctatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGCGAATGGCCATGGGCATGAAACCTGATCAGAAAGGTGTGCGCATTAGAAG
          ||        ||  |  |  || |  ||  ||    |   |  |   |   ||||   |  | |||   |    | | |||||  | | |   | |  | | |||||||||||| |||||  | || |||||||||||||| ||||||||||| || |  || ||||| |||||||||||||| || ||||| ||  || ||||
---------cagtctatggttaccacttctatctttctggtattttacatttgccacgtggttttttga--aggttccgttatttaatatcttcatgtat---tataatttcagGATTCCCTATACTTGGAATAGAATGGCAGAAAATGGAGAATCCTGATCTCCGCAAAGCGATGGGAATGAAACCTGATCAAAAGGGTGTTCGTGTTCGAAG

upper sequence: GLYMA05G01930.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g12780.1 (Oryza sativa), 3'ss of exon 3
gtaatatggtagctaggaactaagatgtagatttcacttttacaagatgctacctgagcatttttagaattaag---ttttatgc-actcagatctttctttctctatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGCGAATGGCCATGGGCATGAAACCTGATCAGAAAGGTGTGCGCATTAGAAG
                 || |    ||| |   ||  |||| ||  ||  || ||   ||| | |   |||  |   ||  |||| | |    | ||  || || |||    |   ||| || ||||| |||||  | || |||||||||||||||||||||||||| |||| ||| ||||| |||||| |||| || || ||||| ||  | |||||
----------------aaaatgttttgtggtaatcctttttccattat--taacttcacatctatgatattctgattttccatgctatttgcttgttatttcctttattcttttgcagGTTTTCCTATACTTGGAATAGAATGGCAGAAAATGGAAAATCCTGATCTCCGAAAGGCAATGGGAATGAAATCTGACCAAAAGGGTGTTCGTGTCAGAAG

upper sequence: GLYMA05G01930.1 (Glycine max), 3'ss of exon 3
lower sequence: AC212112.4_FGT002 (Zea mays), 3'ss of exon 3
-gtaatatggtagctaggaactaagatgtagatttcacttttacaagatgctacctgagcatttttagaattaagttttatgcactcagatctttctttctctatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGCGAATGGCCATGGGCATGAAACCTGATCAGAAAGGTGTGCGCATTAGAAG
    || |  |   ||| | ||| |||||  ||  |            | |  | |     ||| ||   |  | |   | |   |   || || |||| | | | |  | ||||| || ||||| ||||| ||||| |||||||||||||| ||||| ||||| || |  || ||||| |||||||| ||||| || ||||| ||  |||||||
ctccatgtaatgtttagta-ctatgatgttcatgcc------------tacctcttagatctttctaatttccaatgaca-gtgttactatatt-ctttttatgtattattttagGCTTTCCTATACTTGGAGTTGAATGGCAGAAAATGGAGAATCCAGATCTCCGCAAAGCAATGGGAATGAAACCAGATCAAAAGGGTGTTCGTGTTAGAAG

upper sequence: GLYMA05G01930.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G144501_T02 (Zea mays), 3'ss of exon 3
gtaatatggtagctaggaactaagatgtagatttcacttttacaagatgctacctgagcatttttagaattaagttttatgcactcagatctttctttctctatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGCGAATGGCCATGGGCATGAAACCTGATCAGAAAGGTGTGCGCATTAGAAG
   || |  ||  ||| | ||  ||||| |||  |  |     | |||  | | |      ||||  ||| |     ||  ||         |||||| | | | |  | | ||| || ||||| || || ||||| |||||||||||||| ||||||||||| || |  || ||||| |||||||| ||||| || ||||| ||  |||| ||
tccatgtaatacttagta-ctgtgatgttgatgcctatccctta-gatctttctta-----ttttccaatgacagcctaaccata-------ttctttttgtttattatttcagGGTTTCCTATACTAGGAGTTGAATGGCAGAAAATGGAGAATCCTGATCTCCGTAAAGCAATGGGAATGAAACCAGATCAAAAGGGTGTTCGTGTTAGGAG

upper sequence: GLYMA05G01930.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G165969_T01 (Zea mays), 3'ss of exon 4
gtaatatggtagctaggaactaagatgta-gatttcacttttacaagatgctac-ctgagcatttttagaattaagttttatgcactcagatctttctttctctatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGCGAATGGCCATGGGCATGAAACCTGATCAGAAAGGTGTGCGCATTAGAAG
    | |  ||  | | || |    | ||  || | |  |  ||   | | ||| |  |   | ||  ||||   ||   ||| | | |     |  | | ||  | |||    ||| |||||||| |||||  | || ||||| |||||||||||||||||||| || | ||| ||||| |||||| || | || || ||||| || ||  ||||
---ttttattaatttgaaattgtactatataatctgatgtgcactcta-gttacacctatggtcttctgaatctggt---atgtaatta-----tcttgtttcattttgc----agGTTTCCCTATACTTGGAATAGAATGGCAAAAAATGGAAAATCCTGATCTCCGCAAGGCAATGGGAATGAAAGCTAACCAAAAGGGTGTTCGGATACGAAG

upper sequence: GLYMA05G01930.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 3
gtaatatggtagctaggaactaagatgtagatttcacttttacaagatgctacctgagcatttttagaattaagttttatgcactcagatctttctttctctatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGCGAATGGCCATGGGCATGAAACCTGATCAGAAAGGTGTGCGCATTAGAAG
     ||  |  |   |   || ||||||    |||    |      |  | ||   ||  || ||     | | | | ||   |||    ||| |||   ||  || |   ||||||||| || ||  |  ||||||||||||| ||||||||||||||| |||||||||| ||||| ||||||||||||||||| || || ||  |||||||
----aatttttcccttgctttatgatgtaatgctcaaaccttt----tttttcccctgc--ttctaattccatgatatttgttatcatgattttgttt---taaatgtt-ccagGATTCCCAATCCTATGCCTTGAGTGGCAGAAGATGGAAAATCCTGATTTGCGAATGGCAATGGGAATGAAACCTGATCAGAAGGGCGTTCGTGTTAGAAG

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|208184853|gb|GD981115.1|GD981115
EST:     AGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTG                         GATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGC
genomic: AGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTGgtaatatggt ... ctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGC
EST: gi|7285317|gb|AW597804.1|AW597804
EST:     AGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTG                         GATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGC
genomic: AGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTGgtaatatggt ... ctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttttagaattaagttttatgcactcagatctttctttctctatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAGAAAATGGAAAATCCTGATCTGCGAATGGCCATGGGCATGAAACCTGATCAGAAAGGTGTGCGCATTAGAAG
                              tctttctttctctatc  CT-rich tract
     tagaattaagttttat  TA-rich tract