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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttttgatgaatgtacatacaatgtatcagattattctttttttttgtcataacctggtatgctgatatttgtattttgtatcagTGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCTGGACGCACAGGAAGAGCAG

Basic information

species Glycine max
transcript GLYMA10G38680.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G38680.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv16s0022g02110.t01 (Vitis vinifera), 3'ss of exon 8
---gtacttttgatgaatgtacatacaat--gtatcagattatt------ctttttttttgtcataacctggtatgctgatatt-tgtattttgtatcagTGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCTGGACGCACAGGAAGAGCAG
    ||  | | ||  ||| |   |  |     |  | | |  |      ||||    || |  |   |   ||  |||||| | | | | |||  | ||||||| || || |||||||| ||||| || |||||||| ||||||||||||||||||||||
tcattagatgtaatatatgcatgcatgactaacacaaaaatggtgtggacctttcaagttatgcttctcaaatacactgatagtgtttttcttgctttagTGTGAGCCTCCTCGAGATGTTGAAGCTTACATCCATCGATCTGGACGCACAGGAAGAGCAG
















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|208160413|gb|GD958751.1|GD958751
EST:     ATGTGGCAGCTCGAGGTCTTGATATCAATGATGTTCAGTTAATTATCCAG                         TGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCT
genomic: ATGTGGCAGCTCGAGGTCTTGATATCAATGATGTTCAGTTAATTATCCAGgtacttttga ... tttgtatcagTGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCT
EST: gi|208306070|gb|GE104905.1|GE104905
EST:     ATGTGGCAGCTCGAGGTCTTGATATCAATGATGTTCAGTTAATTATCCAG                         TGTGAACCCCCA-GAGATGTAGAAGCCTATATCCATCGTTCNGGACGCACA
genomic: ATGTGGCAGCTCGAGGTCTTGATATCAATGATGTTCAGTTAATTATCCAGgtacttttga ... tttgtatcagTGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCTGGACGCACA
EST: gi|208164138|gb|GD959382.1|GD959382
EST:     ATGTTCAGTTAATTATCCAG                         TGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCTGGACGCACA
genomic: ATGTTCAGTTAATTATCCAGgtacttttga ... tttgtatcagTGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCTGGACGCACA
EST: gi|151412885|gb|EV282697.1|EV282697
EST:     ATGTGGCAGCTCGGGGTCTTGATATCAATGATGTTCAGTTAATTATCCAG                         TGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCTGGACGCACA
genomic: ATGTGGCAGCTCGAGGTCTTGATATCAATGATGTTCAGTTAATTATCCAGgtacttttga ... tttgtatcagTGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCTGGACGCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attattctttttttttgtcataacctggtatgctgatatttgtattttgtatcagTGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCTGGACGCACAGGAAGAGCAG
                                   atatttgtattttgta  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttttgatgaatgtacatacaatgtatcagattattctttttttttgtcataacctggtatgctgatatttgtattttgtatcagTGTGAACCCCCACGAGATGTAGAAGCCTATATCCATCGTTCTGGACGCACAGGAAGAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG