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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatgaactaactttatatataaaccggcattcattcaatctgagcatggatataccgatgtttcatttgtttatttaataatatctgttaactgcagGTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGATGACAAATCCACATATTGGTAACACTGGTGTAAATTTTG

Basic information

species Glycine max
transcript GLYMA05G32190.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32190.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g47850.3 (Oryza sativa), 3'ss of exon 3
-----------------------------------------------gtgagatgaactaactttatatataaaccggcattcattcaatctgagc--atggatataccg-atgtttcatttgtttat------------ttaataatatctgttaa-ctgcagGTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGATGACAAATCCACATATTGGTAACACTGGTGTAAATTTTG
                                                |||||||  || | | |   |    |  |  |  ||   || || | |  || | |    ||   ||     || || |              |||    |||   |   ||||||||||||||| ||| | || ||||| || ||||||||||| ||||| || ||||| || ||||||||||| ||||||||||| |||  ||
gtaaatcaactaaccgtttgagtgatggcatttgtttcctgttgtggttgagatgtgcttattgttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttattgacaacaggaaacaactaacctcatcaaatgggctgcagGTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTG

upper sequence: GLYMA05G32190.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G147450_T02 (Zea mays), 3'ss of exon 2
gtgagatgaac-taactttatatataaaccggcattcattcaatctgagcatggatataccgatgtttcat-ttgtttatttaataatatctgttaactgcagGTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGATGACAAATCCACATATTGGTAACACTGGTGTAAATTTTG
    |  |||  |   |   ||| |   |     || ||  | | || ||     |||  |  |      | ||   ||| |   |  || |||    ||||| ||||| || ||| | |||||||| || ||||||||||| ||||| |||||||| ||||| ||||||||||||||||| || |||  ||
acttgtcgaatgttgatgattatgttgtcgaatgttgatg-attatgcgccattctatgtcactaagaattgttacctatgtggca-catttgt-ggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGATGACCAATCCCCATATTGGTAACACTGGCGTTAATCCTG

upper sequence: GLYMA05G32190.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G029573_T01 (Zea mays), 3'ss of exon 3
-gtgag-atgaactaactttatatataaaccggcattcattcaatctgagcatggatataccgatgtttcatttgtttatttaataatatctgttaactgcagGTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGATGACAAATCCACATATTGGTAACACTGGTGTAAATTTTG
  |||  ||||  |  |  |  |  ||    |    | || ||   | |   | | ||   | | |  |  ||   |||  |   |  || |||    ||||| ||||| || ||| | || ||||| |||||||||||||||||||| || ||||| ||||| |||||||| |||||||| || |||  ||
attgaacatgacttgtcgatgcagttatgttgatgattatgcaccataattctaggtaggactaagaattgtt-acttacatggca-catttgt-ggttgcagCTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG

upper sequence: GLYMA05G32190.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G147450_T03 (Zea mays), 3'ss of exon 4
gtgagatgaac-taactttatatataaaccggcattcattcaatctgagcatggatataccgatgtttcat-ttgtttatttaataatatctgttaactgcagGTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGATGACAAATCCACATATTGGTAACACTGGTGTAAATTTTG
    |  |||  |   |   ||| |   |     || ||  | | || ||     |||  |  |      | ||   ||| |   |  || |||    ||||| ||||| || ||| | |||||||| || ||||||||||| ||||| |||||||| ||||| |||||||                     
acttgtcgaatgttgatgattatgttgtcgaatgttgatg-attatgcgccattctatgtcactaagaattgttacctatgtggca-catttgt-ggttgcagCTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGATGACCAATCCCCATATTG---------------------

upper sequence: GLYMA05G32190.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G27740.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgagatgaactaactttatatataaaccggcattcattcaatctgagcatggatataccgatgtttcatt--tgtttatttaataatatctgttaactgcagGTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGATGACAAATCCACATATTGGTAACACTGGTGTAAATTTTG
               ||| |   |  |      ||||||  |||    ||  ||| |   ||| ||   ||  ||  | ||  ||  | | ||||    | ||||||||||||||| |||| ||||||||||||||||| |||||||| || |||||||| ||||| |||||||| |||||||| |||  ||
---------gtatgttttgttctttgat-----ttcattatatcacctcaaagat-tgttgattttagcttactgaatcttagattttgtttgtttttggaagGTATCAAGAAATTTTAACTGATCCTAGTTATGCTGGGCAGTTTGTGCTAATGACAAACCCACAAATTGGTAATACTGGTGTCAATCCTG

upper sequence: GLYMA05G32190.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0044g00550.t01 (Vitis vinifera), 3'ss of exon 2
gtgagatgaactaactttatatataaaccggcattcattcaatctgagcatggatataccg---atgtttcatttgtttat-ttaata-atatctgtta-actgcagGTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGATGACAAATCCACATATTGGTAACACTGGTGTAAATTTTG
          ||    |||| |  |||     | | |    ||    |  | |||||   |   ||| | ||| | |  |  || |||  |   ||| | | ||||| ||||| |||||||| ||||| |||||||||||||||||||| ||  | |||||||||||||||||||| ||||| || ||||||||||
-------tggctctgcttatctgcaaagttaaaatgacctgattgaggagttgatattttgttcatgatccatatatggaagttgatatgtggttgtcatattgcagATATCAGGAAATTCTTACAGACCCTAGTTATGCTGGTCAGTTCGTCTTAATGACAAATCCACATATTGGCAACACGGGGGTAAATTTTG

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|22524996|gb|BU083807.1|BU083807
EST:     GCTTCAGGAACCCAAGTTGGAGAAGTTGTTTTTAATACATCATTGACTGG                         GTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGAT
genomic: GCTTCAGGAACCCAAGTTGGAGAAGTTGTTTTTAATACATCATTGACTGGgtgagatgaa ... ttaactgcagGTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcatggatataccgatgtttcatttgtttatttaataatatctgttaactgcagGTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGATGACAAATCCACATATTGGTAACACTGGTGTAAATTTTG
                                           tgttaac  putative branch site (score: 2)
               atgtttcatttgttta  TA-rich tract