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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAAGTGGTGCCTTTTCATGGGAAATTGCTCCAGTTGAAGTCTCTGGTGGAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAGgtaaccatataaataacttgaaccatggtaatacttgttcttgtataaatatggtgagcctacgaaaacacatgtttacccaataattcatgagtcttca...

Basic information

species Glycine max
transcript GLYMA14G00760.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G00760.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv12s0057g01200.t01 (Vitis vinifera), 5'ss of exon 8
AGAAAGTGGTGCCTTTTCATGGGAAATTGCTCCAGTTGAAGTCTCTGGTGGAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAGgtaac--catataaataacttgaacca-tggtaatacttgttcttgtataaatatggtgagcctac----gaaaacacatgtttacccaataattcatgagtcttca
                                  |||||||| ||||| |||||||| |||||||||||  ||||||| ||||||||||| |||||||| ||||   ||||||| || ||| |  || |   |||  || |       ||||| |  |     ||     || | |  || |||    || | ||    |       
----------------------------------GTTGAAGTTTCTGGGGGAAGAGGGAGACCATCAACTATTGTTGACAAGGATGAAGGTCTAGGAAAAgtaagtgcatataagtatctttatgcagtttcaatttttatagcaccgtaaattttctctttttagatcagagatcttatttttcttgaaaagttggcca-------
















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|19052939|gb|BM731606.1|BM731606
EST:     GAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAG                         TTTGATGCTGCCAAGTTACGCAAACT
genomic: GAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAGgtaaccatat ... cctatgccagTTTGATGCTGCCAAGTTACGCAAACT
EST: gi|192328380|gb|FK020091.1|FK020091
EST:     GAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAG                         TTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGA
genomic: GAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAGgtaaccatat ... cctatgccagTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGA
EST: gi|209708680|gb|BW678861.1|BW678861
EST:     GAAGGGGAAGACCATCAACAGTTGTTGATAAGGACGAAGGCCTAGGAAAG                         TTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGA
genomic: GAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAGgtaaccatat ... cctatgccagTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGA
EST: gi|192329988|gb|FK021574.1|FK021574
EST:     GAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAG                         TTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTT
genomic: GAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAGgtaaccatat ... cctatgccagTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTT
EST: gi|37994372|gb|CF806118.1|CF806118
EST:     GAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAG                         TTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGA
genomic: GAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAGgtaaccatat ... cctatgccagTTTGATGCTGCCAAGTTACGCAAACTTCGGCCAAGTTTCAAGGAGACTGGA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAAAGTGGTGCCTTTTCATGGGAAATTGCTCCAGTTGAAGTCTCTGGTGGAAGAGGAAGACCATCAACAGTTGTTGATAAGGATGAAGGCCTAGGAAAGgtaaccatataaataacttgaaccatggtaatacttgttcttgtataaatatggtgagcctacgaaaacacatgtttacccaataattcatgagtcttca

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG