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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttccatgcatcttttcctgtctacaattttctgtatttctatgctcttggccgagtactgtatttgattattgctgatatatttctttctcttcttcagATATTTGAAACACCAAAGGACCACAGAAAGGCCAAGCCTTTCCATGATCACGTTTTTGTTTTCTCAATAGTTGATGACCATATATGGTTCCGGAATTATC

Basic information

species Glycine max
transcript GLYMA08G28320.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G28320.2 (Glycine max), 3'ss of exon 5
lower sequence: AT3G15460.1 (Arabidopsis thaliana), 3'ss of exon 4
gttccatgcatcttttcctgtctacaattttctgtatttctatgctcttggccgagtactgtatttgattattgctgatatatttctttctcttcttcagATATTTGAAACACCAAAGGACCACAGAAAGGCCAAGCCTTTCCATGATCACGTTTTTGTTTTCTCAATAGTTGATGACCATATATGGTTCCGGAATTATC
||  ||| |    |||    |     |   ||  | | |    ||  || |    ||  | ||| |  | |    | |  | ||  ||| |    | ||||| |||| ||  ||  |||  || || ||| | || |||| |||||| || || ||||||||||| || ||||||||||||||||||||||| ||||| |
gtctcattctcacttttgaattgtggacgatccttttgtagtcgcggttagtttggt-ttatatct--tcaacttttaagttttgtttttttgcttacagATTTTTGGAATTCCCGAGGGACATAGGAAGTCTAAACCTTACCATGACCATGTGTTTGTTTTCTCCATTGTTGATGACCATATATGGTTCCGTAATTACC

upper sequence: GLYMA08G28320.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G52930.1 (Arabidopsis thaliana), 3'ss of exon 4
---gttccatgcatcttttcctgtctacaattttctgtatttctatgctcttggccgagtactgtatt-tgattattgctgatatatttctttctcttcttcagATATTTGAAACACCAAAGGACCACAGAAAGGCCAAGCCTTTCCATGATCACGTTTTTGTTTTCTCAATAGTTGATGACCATATATGGTTCCGGAATTATC
   ||| |  |  || | |||| |  | ||| || |   |   |  | |||     || |     ||  | |||| |  || | | ||| | ||||      || | || | ||  || ||||| ||||| ||  | ||||||| |||||| || || ||||| || ||||| |||||||| |||||||||||||| ||||| |
gttgttgccagattcatatcct-tggataatgtttttggtccattagttctcaa--gactttcacatcctaattagttttgttttgtttatctctc------agGTCTTCGGAATTCCTAAGGAACACAGGAAATCTAAGCCTTACCATGACCATGTATTTGTCTTTTCAATTGTTGATGAGCATATATGGTTCCGAAATTACC

upper sequence: GLYMA08G28320.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0005g04550.t01 (Vitis vinifera), 3'ss of exon 4
-gttccatgcatcttttcctgtctacaattttctgtatttctatgctcttggccgagtactgtatttgattattgctgatatatttctttctcttcttcagATATTTGAAACACCAAAGGACCACAGAAAGGCCAAGCCTTTCCATGATCACGTTTTTGTTTTCTCAATAGTTGATGACCATATATGGTTCCGGAATTATC
  ||        |   | ||    |  || ||    || | | |||   |     |||  | |  |        | ||| |  ||| ||| | ||  | ||||||||| ||| || ||||| ||||| || || || ||||  |||||||| || |||| ||||||| | | |||||| ||||||||||||||||| || |
tattttgctaggcaccttctaag-attatcttgctcatctatttgcctatatataagttttatcctcttgataagttgacaggttttttttttttggttagATATTTGGAACTCCGAAGGAGCACAGGAAAGCTAAACCTTATCATGATCATGTCTTTGCTTTCTCACTTGCTGATGATCATATATGGTTCCGGAACTACC

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|151409158|gb|EV278966.1|EV278966
EST:     ATTTTGAAAAAGATGCACATTGGAAACTATTAAAGGAGATGTTGTTACAG                         ATATTTGAAACACCAAAGGACCACAGAAAGGCCAAGCCTTTCCATGATCAC
genomic: ATTTTGAAAAAGATGCACATTGGAAACTATTAAAGGAGATGTTGTTACAGgtacatggct ... tcttcttcagATATTTGAAACACCAAAGGACCACAGAAAGGCCAAGCCTTTCCATGATCAC
EST: gi|151399665|gb|EV269536.1|EV269536
EST:     ATTTTGAAAAAGATGCACATTGGAAACTATTAAAGGAGATGTTGTTACAG                         ATATTTGAAACACC
genomic: ATTTTGAAAAAGATGCACATTGGAAACTATTAAAGGAGATGTTGTTACAGgtacatggct ... tcttcttcagATATTTGAAACACC
EST: gi|15815223|gb|BI787498.1|BI787498
EST:     ATTTTGAAAAAGATGCACATTGGAAACTATTAAAGGAGATGTTGTTACAG                         ATATTTTGAA-CACCAAAGGACCACAGAAAGGCCAAGCCTTTCCATGATCA
genomic: ATTTTGAAAAAGATGCACATTGGAAACTATTAAAGGAGATGTTGTTACAGgtacatggct ... tcttcttcagATATTT-GAAACACCAAAGGACCACAGAAAGGCCAAGCCTTTCCATGATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttggccgagtactgtatttgattattgctgatatatttctttctcttcttcagATATTTGAAACACCAAAGGACCACAGAAAGGCCAAGCCTTTCCATGATCACGTTTTTGTTTTCTCAATAGTTGATGACCATATATGGTTCCGGAATTATC
                           tgctgat  putative branch site (score: 3)
                                 tatatttctttctctt  CT-rich tract
              tgtatttgattatt  TA-rich tract