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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataaagtttatttgctgttatatctagctttcggaaaaaaataaacttgtctgacttgagattatgaggtcaatagagtaattctttttgaattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATTCTTAGTTTCAATGAAAATATG

Basic information

species Glycine max
transcript GLYMA0048S00290.3
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g49690.1 (Oryza sativa), 3'ss of exon 8
-----ataaagtttatttgctgttatatctagctttcggaaaaaaataaacttgtctgactt-----gagattatgaggtcaatagagtaattctttttgaa-----ttttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATTCTTAGTTTCAATGAAAATATG
      |   ||| |  ||    |  |  ||    | | |    | ||| ||||| |  |||      | | | | |  |  ||      || |  |   |      |||| ||||| |||||||| |||||||| || ||| | ||||||||||| |||||||| || || |||| ||| |  |||
gtaagtttctgttcacatgtcagtccagataatcatagcattgtactaagcttgtatttcttttttcaatactgttatattgatgctcacataccctgcaataccttttttccagGTGTGGTCCGCTCCTAATTATTGCTACAGATGTGGAAATGTTGCTTCTATACTAAGCTTCAGTGAGACAATG

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 8
lower sequence: AT3G19980.1 (Arabidopsis thaliana), 3'ss of exon 8
ataaagtttatttgctgttatatctagctttcggaaaaaaataaacttgtctgacttgagattatgaggtcaatagagtaattctttttgaattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATTCTTAGTTTCAATGAAAATATG
    ||| |  |   | | ||   | | | |     |  | |   | | |   |  |  | ||| | | |   ||     ||| | |||   || |  |||||||||| |||||||||||||||||||| ||||| ||||| ||||||||  | ||||||||||| || |||
-gtgagtgtcctgcttctaatgaattgatattttttattagtgggcgttttgaaactctgctta-gtgattgtta-----attttgttttgtttgtgaagGTATGGTCTGCACCTAATTACTGTTACCGCTGTGGGAATGTCGCTTCTATATTGAGTTTCAATGACAACATG

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 8
lower sequence: AT1G50370.1 (Arabidopsis thaliana), 3'ss of exon 8
ataaagtttatttgctgttatatctagctttcggaaaaaaataaacttgtctgacttgagattatgaggtcaatagagtaattctttttgaattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATTCTTAGTTTCAATGAAAATATG
    |  |   |||||    |||     ||| ||| |     ||   |      ||||    | |    ||  |    | ||| ||||||     || |||| ||||| || ||||||||||| ||||||||||| ||||| ||||||||  | ||||||||||| || |||
--gtaagtgccttgcttccttatgatcattttggatagttggaagtataatctgcttggtgatgtttcttctct----ttattttttttg-----taaagGTGTGGTCTGCGCCTAATTACTGCTACCGTTGTGGGAATGTGGCTTCTATATTGAGTTTCAATGACAACATG

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv10s0071g00950.t01 (Vitis vinifera), 3'ss of exon 8
ataaagtttatttgctgttatatctagctttcggaaaaaaataaacttgtctgacttgagattatgaggtcaatagagtaattctttttgaattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATTCTTAGTTTCAATGAAAATATG
          |  | |  | ||      ||| | |      |   | |   |   || |       |  | |||||  | ||||||   || |||| ||||| ||||| ||||| || ||||||||||||||||| ||||| ||||| ||  | || |||||||| ||||||
---------gtaagattctgta---gatttttgcagttgttttgtcatcgatagttttaaccatcaatattaatagtttgattctt---gactttttcagGTCTGGTCTGCACCAAACTACTGTTACCGTTGTGGGAATGTGGCTTCCATATTGAGCTTCAATGAGAATATG

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|151410851|gb|EV280666.1|EV280666
EST:     TCGTTCAAGAAG-TCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACT                         GTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACTgtaagtatct ... aattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
EST: gi|254337376|gb|GR849329.1|GR849329
EST:     TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACT                         GTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACTgtaagtatct ... aattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
EST: gi|16345163|gb|BI970758.1|BI970758
EST:     TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACT                         GTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACTgtaagtatct ... aattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
EST: gi|254340657|gb|GR854385.1|GR854385
EST:     TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACT                         GTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACTgtaagtatct ... aattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
EST: gi|209728248|gb|BW651683.1|BW651683
EST:     TCGTTCAAGAATGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACT                         GTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACTgtaagtatct ... aattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
EST: gi|207746865|gb|GD721124.1|GD721124
EST:     CAGGATAAAGGCCTTGTAACT                         GTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
genomic: CAGGATAAAGGCCTTGTAACTgtaagtatct ... aattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
EST: gi|213611336|gb|DB983956.1|DB983956
EST:     TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACT                         GTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACTgtaagtatct ... aattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
EST: gi|213593175|gb|DB975366.1|DB975366
EST:     TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACT                         GTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACTgtaagtatct ... aattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
EST: gi|5753202|gb|AI960489.1|AI960489
EST:     TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACT                         GTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACTgtaagtatct ... aattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
EST: gi|31473271|gb|CD415284.1|CD415284
EST:     TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACT                         GTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACTgtaagtatct ... aattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
EST: gi|254340656|gb|GR854384.1|GR854384
EST:     TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACT                         GTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT
genomic: TCGTTCAAGAAGGTCTTAAGTATATGTTCCAGGATAAAGGCCTTGTAACTgtaagtatct ... aattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtctgacttgagattatgaggtcaatagagtaattctttttgaattttacagGTATGGTCCGCACCTAATTACTGTTACCGTTGTGGAAATGTAGCTTCTATTCTTAGTTTCAATGAAAATATG
   gtctgac  putative branch site (score: 3)
                               agtaattctttttgaa  TA-rich tract