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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggatgatcatagtcagataatctttatgtatatgcttgagagtcatattttttctcttaacattatcacaataatgtctacatattttgagttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCACCAACTGTACGATTTGTCTCTCGAATGTTTCACCCAAACA

Basic information

species Glycine max
transcript GLYMA17G10640.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G10640.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g08960.1 (Oryza sativa), 3'ss of exon 3
-----tggatgatcatagtcagataatctttatgtatatgcttgagagtcatattttttctcttaacattatcacaataatgtctacatattttgagttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCACCAACTGTACGATTTGTCTCTCGAATGTTTCACCCAAACA
     |   |  | || | ||  |  |  || |   | |     |  ||  | ||||   | |||||| | ||| ||| |||| |||    || |   |  ||||| ||||| ||| |||  ||||| |||||||| |||||||| ||||||||||| || || |||||||| ||||| |||||||| || ||||
tcctttttgtatttattggcattttgttcttgtacgtgtcaccaattgtactcttttacatgttaacactgtca-aattatgtttac----ttcgccatcgccagGTACGTTCAAGCTGACACTTCAGTTTACTGAAGATTATCCTAACAAGCCACCTACAGTGCGATTTGTTTCTCGGATGTTTCATCCTAACA

upper sequence: GLYMA17G10640.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G110983_T04 (Zea mays), 3'ss of exon 3
--------tggatgat-catagtcagataatctttatgtatatgcttgagagtcatattttttctcttaacattatcacaataatgtctacatattttgagttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCACCAACTGTACGATTTGTCTCTCGAATGTTTCACCCAAACA
        | |||  |   |    || |  ||||| ||    | ||  |  ||    || | ||  || ||  |   |   |||   ||     ||||    |   |||| ||||||||| ||| ||| || |||| ||| || ||||||||||| ||||||||||| |||||||| ||| | ||||| || || ||||
acagctcttagattctgtgtcactagcttgtctttctgagcttactacatggtttgcttctgtcctttgac--tgatatgctaactcctg----tttta---ttctcagGTACGTTTAAGCTGACTCTCCAGTTTAATGAAGAATATCCAAACAAACCACCAACTGTGCGATTTGTTTCTAGGATGTTCCATCCTAACA

upper sequence: GLYMA17G10640.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g05820.t01 (Vitis vinifera), 3'ss of exon 3
tggatgatcatagtcagataatctt-tatgtatatgcttgagagtcatatttt-ttctcttaacattatcacaataatgtctacata-------ttttgagttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCACCAACTGTACGATTTGTCTCTCGAATGTTTCACCCAAACA
          || ||   || | |  | | ||  || | || || |||      |||| |||     ||  || | |  |||| | |       ||||||||| |  ||| |||||||| ||||  ||||| ||| | ||||| ||||||||||| |||||||| || |||||||| || || ||||| || ||||| |
---------ttaatcttctattttcctttataactgttagaaaggcatggaacattcttttagttcgattccattcaaatctataaagatatccttttgagttctttagGTACGTTTAAATTGACACTTCAGTTTTCGGAGGAGTATCCAAACAAACCACCAACAGTGCGATTTGTTTCCCGTATGTTCCATCCAAATA

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|254335070|gb|GR844855.1|GR844855
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|16106211|gb|BI893951.1|BI893951
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|254335069|gb|GR844854.1|GR844854
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|192331367|gb|FK021035.1|FK021035
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGCTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|21888252|gb|BQ741465.1|BQ741465
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|192330437|gb|FK021196.1|FK021196
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGCTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|254331190|gb|GR843309.1|GR843309
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|192330438|gb|FK021197.1|FK021197
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGCTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|48575423|gb|CO036396.1|CO036396
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|16996966|gb|BM086338.1|BM086338
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|208058951|gb|GD858983.1|GD858983
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|192331366|gb|FK021034.1|FK021034
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGCTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|14259666|gb|BG882574.1|BG882574
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
EST: gi|254317221|gb|GR826166.1|GR826166
EST:     TCCTGATGATACTCCATGGGATGGAG                         GCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC
genomic: TCCTGATGATACTCCATGGGATGGAGgtgagtttgt ... agttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattttttctcttaacattatcacaataatgtctacatattttgagttatccagGCACGTTTAAGTTGATTCTTCAATTTACTGAGGATTATCCAAACAAGCCACCAACTGTACGATTTGTCTCTCGAATGTTTCACCCAAACA
          tcttaac  putative branch site (score: 2)
                 attatcacaataat  TA-rich tract