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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

taccgtatttgtgattaatcttcatacagtggaatctatgatgatgcttgattgttttgatcactgtactttttgtttgtcttttcagaTTGGCCTATCTTCATGAGGGTCTTGAACCAAAAGTTGTCCACCGAGATGTGAAATCAAGTAACATACTCATTGATCGCCAATGGAACTCCAAGGTTTCTG

Basic information

species Glycine max
transcript GLYMA18G47170.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G47170.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G01330.1 (Arabidopsis thaliana), 3'ss of exon 3
-taccgtatttgtgattaatcttcatacagtggaatctatgatgatgcttgattgttttgatcactgtactttttgtttgtcttttc--agaTTGGCCTATCTTCATGAGGGTCTTGAACCAAAAGTTGTCCACCGAGATGTGAAATCAAGTAACATACTCATTGATCGCCAATGGAACTCCAAGGTTTCTG
 |||    |  | ||     |||     | |   || | |||      |    | |||  ||   ||   | ||||||  | ||  |  |||||||||||||| ||||||||||||||||| ||||| || || || ||  | ||||| ||||| ||  |  ||||||| ||||||||  | ||||| ||  
gtac-acttccgagagacgcctttgataactttcatttgtga----attcatctttttctatatgtgatttgtttgttgatattcccgcagATTGGCCTATCTGCATGAGGGTCTTGAACCGAAAGTCGTTCATCGGGACATAAAATCTAGTAATATTTTGCTTGATCGTCAATGGAATGCTAAGGTATCA-

upper sequence: GLYMA18G47170.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G01540.1 (Arabidopsis thaliana), 3'ss of exon 3
taccgtatttgtgattaatcttcatacagtggaatctatgatgatgcttgattgttttgatcactgtactttttgtttgtcttttcagaTTGGCCTATCTTCATGAGGGTCTTGAACCAAAAGTTGTCCACCGAGATGTGAAATCAAGTAACATACTCATTGATCGCCAATGGAACTCCAAGGTTTCTG
    |||  | ||    | |||  |    ||   |||||| | ||     |||||| ||     ||||    ||  || | | |  |||||||| ||||| || ||||||||||| ||||||||||| || || ||| | |||||||| || ||  |  ||||||||||||||||  | ||||||||  
----gtaagtctggaatagcttt-tgagttgtcctctatgtttataagctattgttgtg-----tgtaaacctttgttatatctgtagATTGGCGTATCTACACGAGGGTCTTGAGCCAAAAGTTGTTCATCGGGATATTAAATCAAGCAATATCTTACTTGATCGCCAATGGAATGCTAAGGTTTCG-

upper sequence: GLYMA18G47170.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 3
-----taccgta-tttgtgat--taatcttcatacag--tggaatctatgatgatgcttgattgttttgatcactgtactttt---tgtttgtcttttcagaTTGGCCTATCTTCATGAGGGTCTTGAACCAAAAGTTGTCCACCGAGATGTGAAATCAAGTAACATACTCATTGATCGCCAATGGAACTCCAAGGTTTCTG
     |||| || | ||  ||  | |     || ||   |     | |  |   ||||||   | ||     | ||| ||||    | |||||   |  ||||||||||||||||||||||||||||||||||| |||||||| |||||||| ||||| || ||||||||  ||||||||||||||||||| ||||| ||| 
gtacctaccctagtctgatatactgaaaactatccaacttttgcccgaaaacattgcttggcaggttgttctaatgtgctttgctatttttgttgctgtagATTGGCCTATCTTCATGAGGGTCTTGAACCAAAGGTTGTCCATCGAGATGTAAAATCTAGCAACATACTACTTGATCGCCAATGGAACTCTAAGGTGTCT-

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|58018434|gb|CX705176.1|CX705176
EST:     TGACATGGAACATACGGATGAACATTATATTGGGAACAGCAAGAGGA                         TTGG-CTATCTTCATGAGGGTCTTGAACCAAAAGTTGTCCACCGAGATGTG
genomic: TGACATGGAACATACGGATGAACATTATATTGGGAACAGCAAGAGGGtaccgtattt ... tcttttcagaTTGGCCTATCTTCATGAGGGTCTTGAACCAAAAGTTGTCCACCGAGATGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatgatgatgcttgattgttttgatcactgtactttttgtttgtcttttcagaTTGGCCTATCTTCATGAGGGTCTTGAACCAAAAGTTGTCCACCGAGATGTGAAATCAAGTAACATACTCATTGATCGCCAATGGAACTCCAAGGTTTCTG
                    ttttgat  putative branch site (score: 4)
                                  ctttttgtttgtcttt  putative PPT
                                   tttttgttt  TA-rich tract