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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattgattcatgttattatgacttcttgcatgttatcaacttgtggcttttatacactatgttgagtcctatttcattgactatatcaacatattgactatgttgttcttaaatgatatctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGGATTTCCCTGGCAGGATTGTCGTTGGCTAAATGCGAATACCTTGCGGATG

Basic information

species Glycine max
transcript GLYMA17G33050.4
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os02g55420.1 (Oryza sativa), 3'ss of exon 10
---------gtaattgattcatgttattatgacttcttgcatgttatcaacttgtggctttt--atacactatgttgagtcctatttcattgactatatcaacatattgactatgttgttcttaaatgat--atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGGATTTCCCTGGCAGGATTGTCGTTGGCTAAATGCGAATACCTTGCGGATG
         |   |  |||        ||  |||||     |  |||| ||| |||  || |  ||| |  |||| || | | |   |    | |    ||| | | | | |||  |    || | |  |   | |   |||||||| || |||||  |||| |||||| ||||||||||||||||||| || |||||  |||| ||||||||  ||||||||||||| ||||| || || |
gtgacatatgctttaaattttcacagataacacttccattcttctatcgactggtgatttctccatatataatgt-gactgcaaacactgcaattcacacaatacactaagtattcttaatttgattcgtttgtatttgcagAGTGATAATATGACCGACAAATGGCACATATACATGACAAAGGATGGGAGAATTTCGTTGGCTGGATTGTCCCTGGCTAAATGCGAGTACCTAGCTGACG

upper sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 10
lower sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 12
gtaattgattcatgttattatgacttcttgcatgttatcaacttgtggcttttatacactatgttgagtcctatttcattgactatatcaacatattgactatgttgttcttaaatgatatctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGGATTTCCCTGGCAGGATTGTCGTTGGCTAAATGCGAATACCTTGCGGATG
         |    |  | |  | |   || |  ||      | |||||| || || ||||    |  |   |||   ||  ||  |   | |  ||| ||   ||  ||||      | ||  |||||||||| || |||||||| |||||||| || |||||||| ||||| || ||||| ||  |||| |||||||| ||||| ||||||||||| ||||| ||||
---------tagcttcctaacaagtgactgtagttt------tggtggctgtt-tatacta----gcatatcattctgtttcctggacttatactttggct---tttctctt------tgtccaatcagAGTGAGAATATGACAAATAAGTGGCATGTGTACATGACCAAGGACGGGAGGATCTCATTGGCTGGATTGTCTTTGGCCAAATGCGAATATCTTGCAGATG

upper sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 10
lower sequence: PP1S540_7V6.2 (Physcomitrella patens), 3'ss of exon 10
-----------------------------------------------------------gtaat-tgattcatgttattatgacttcttgcatgttatcaacttgtggcttttatacactatgttgagtcctatttcattgactatatcaacatattgac---tatgttgttcttaaatgatatctcat--------cagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGGATTTCCCTGGCAGGATTGTCGTTGGCTAAATGCGAATACCTTGCGGATG
                                                            | |     || ||  ||||   || ||||  |    | | ||| ||| |     |   ||   | ||      |||  ||  ||| ||     |  |||    || |||    |    | |  | |  |        ||||||||||| |||||  |||| |||||||| |||||||| ||||||||  | ||||| || || ||| |    ||||| || || |  ||| | || ||||
gtatttgtattaccatctcttcgatttgcgtgggctccaggtccacattttcgtacttgttgacgcagtttattctattgaaacctctt-tacaa-agccactggtgcccacggttatcttattcgaaggtattttggttagctacattcgttttgtgagacgtacgtttacttctgctaacgtttgtttgtggtggcagAGTGACAATATGACTGACAAATGGCACGTGTACATGACCAAGGATGGTCGTATTTCACTTGCTGGACTCAACTTGGCAAAGTGTGCTTACTTGGCCGATG

upper sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 10
lower sequence: EFJ26197 (Selaginella moellendorffii), 3'ss of exon 8
gtaattgattcatgttattatgacttcttgcatgttatcaacttgtggcttttatacactatgttgagtcctatttcattgactatatcaacatattgactatgttgttcttaaatgatatctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGGATTTCCCTGGCAGGATTGTCGTTGGCTAAATGCGAATACCTTGCGGATG
                                                         |  | | |   ||  | ||     |   |      || || ||| || |         |||| | |   |||||||||||||||||  | || |||||||| |||||||||||||||||| | |||||| |||| ||||||    | || || || || ||||||||||| |
-------------------------------------------------------gtaaaaagct--ctcgaagttttcgaaacctggttggatcttcactgtgatcgct----gtgatgtttt-ccagAGTGACAACATGACTGATAAATGGCACGTTTACATGACAAAGGATGGACGAATTTCCTTGGCTGGATTGAATCTAGCCAAGTGTGACTACCTTGCGGACG

upper sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 10
lower sequence: EFJ05582 (Selaginella moellendorffii), 3'ss of exon 8
gtaattgattcatgttattatgacttcttgcatgttatcaacttgtggcttttatacactatgttgagtcctatttcattgactatatcaacatattgactatgttgttcttaaatgatatctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGGATTTCCCTGGCAGGATTGTCGTTGGCTAAATGCGAATACCTTGCGGATG
                                                         |  | | |   ||  | ||     |   |      || || ||| || |         |||| | |  ||||||||||||||||||  | || |||||||| |||||||||||||||||| | |||||| |||| ||||||    | || || || || ||||||||||| |
-------------------------------------------------------gtaaaaagct--ctcgaagttttcgaaacctggttggatcttcactgtgatcgct----gtgatgtttt-tcagAGTGACAACATGACTGATAAATGGCACGTTTACATGACAAAGGATGGACGAATTTCCTTGGCTGGATTGAATCTAGCCAAGTGTGACTACCTTGCGGACG

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|192332684|gb|FK025341.1|FK025341
EST:     TTCACTAGCTTGAACAAGAACCAG                         AGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|58022546|gb|CX709287.1|CX709287
EST:     TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAG                         AGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|51336363|gb|CO980229.1|CO980229
EST:     TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAG                         AGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|193693875|gb|FK628193.1|FK628193
EST:     AACAAGAACCAG                         AGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: AACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|120492269|gb|EH220436.1|EH220436
EST:     TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAG                         AGTGACAACATGACANACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|151403656|gb|EV273466.1|EV273466
EST:     TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAG                         AGTGACAACATGACAAACAGGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|58022284|gb|CX709025.1|CX709025
EST:     TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAG                         AGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|209711313|gb|BW683850.1|BW683850
EST:     TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAG                         AGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|302141298|gb|HO212174.1|HO212174
EST:     TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAG                         AGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|208329212|gb|GE126758.1|GE126758
EST:     TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAG                         AGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|151395412|gb|EV265289.1|EV265289
EST:     TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAG                         AGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|120491497|gb|EH219664.1|EH219664
EST:     TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAG                         AGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
EST: gi|120530683|gb|EH258816.1|EH258816
EST:     TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAG                         AGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG
genomic: TACTTAAGCAGATAGGCATGTTCTCATTCACTGGCTTGAACAAGAACCAGgtaattgatt ... atctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcattgactatatcaacatattgactatgttgttcttaaatgatatctcatcagAGTGACAACATGACAAACAAGTGGCACGTATACATGACAAAGGATGGAAGGATTTCCCTGGCAGGATTGTCGTTGGCTAAATGCGAATACCTTGCGGATG
                   tattgac  putative branch site (score: 2)
                                              tctcatc  putative PPT
         tatatcaacatatt  TA-rich tract