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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATTGCAATAAAAAGTGGCTGGGATCAGTATGGAATTGCTTATGGAAGGCCTTCCATGAATATAATGATCCGAAACCTTGTTGTTCGCTCTATGGTCAGgtaaatccctaactcagccaatttgtaattttctgaatgcctttcagcatctttttatctgggaaaataatcactttctttaggcagctttgtaaaaaaa...

Basic information

species Glycine max
transcript GLYMA13G17170.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G17170.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv11s0016g00720.t01 (Vitis vinifera), 5'ss of exon 4
CAATTGCAATAAAAAGTGGCTGGGATCAGTATGGAATTGCTTATGGAAGGCCTTCCATGAATATAATGATCCGAAACCTTGTTGTTCGCTCTATGGTCAGgtaaatccctaactcagccaatttgtaattttctgaatgcctttcagcatctttttatctgggaaaataatcactttctttaggcagctttgtaaaaaaa-------
 |||||||||||| ||||| ||||||||||||||| |||| |||||| | |||||  | || ||  | ||| ||||||||||  |||||||||||||||||| |   | |    ||    ||   |  |  |||| |  ||||    |||| || | | ||  |  ||  | | |   | |   || |     ||  ||        
GAATTGCAATAAAGAGTGGTTGGGATCAGTATGGAGTTGCCTATGGACGACCTTCAGTAAACATTCTCATCAGAAACCTTGTCATTCGCTCTATGGTCAGgtgagagcttt-tacatatgatgctttctgctctgcaaacctt----catcattctgtgtgc-atgattgtta-tgcatctgcacacccaaacaatgaatcttgggc
















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|193396607|gb|FK364517.1|FK364517
EST:     CCTTCCATGAATATAATGATCCGAAACCTTGTTGTTCGCTCTATGGTCAG                         TGCTGGCATCTCAATAGGCAGTGAGATGTCTGGCGGGGTATCCAACGTCAT
genomic: CCTTCCATGAATATAATGATCCGAAACCTTGTTGTTCGCTCTATGGTCAGgtaaatccct ... aatggaacagTGCTGGCATCTCAATAGGCAGTGAGATGTCTGGCGGGGTATCCAACGTCAT
EST: gi|7589017|gb|AW704800.1|AW704800
EST:     CCTTCCATGAATATTATGATCCGAAACCTTGTTGGTCGCTCTATGGTCAG                         TGCTGGCATCTCAATAGGCAGTGAGATGTCTGGCGGG
genomic: CCTTCCATGAATATAATGATCCGAAACCTTGTTGTTCGCTCTATGGTCAGgtaaatccct ... aatggaacagTGCTGGCATCTCAATAGGCAGTGAGATGTCTGGCGGG
EST: gi|298194604|gb|HO043076.1|HO043076
EST:     CCTTCCATGAATATAATGATCCGAAACCTTGTTGTTCGCTCTATGGTCAG                         TGCTGGCATCTCAATAGGCAGTGAGATGTCTGGCGGGGTATCCAACGTCAT
genomic: CCTTCCATGAATATAATGATCCGAAACCTTGTTGTTCGCTCTATGGTCAGgtaaatccct ... aatggaacagTGCTGGCATCTCAATAGGCAGTGAGATGTCTGGCGGGGTATCCAACGTCAT
EST: gi|51335636|gb|CO979502.1|CO979502
EST:     CCTTCCATGAATATAATGATCCGAAACCTTGTTGTTCGCTCTATGGTCAG                         TGCTGGCATCTCAATAGGCAGTGAGATGTCTGGCGGGGTATCCAACGTCAT
genomic: CCTTCCATGAATATAATGATCCGAAACCTTGTTGTTCGCTCTATGGTCAGgtaaatccct ... aatggaacagTGCTGGCATCTCAATAGGCAGTGAGATGTCTGGCGGGGTATCCAACGTCAT

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAATTGCAATAAAAAGTGGCTGGGATCAGTATGGAATTGCTTATGGAAGGCCTTCCATGAATATAATGATCCGAAACCTTGTTGTTCGCTCTATGGTCAGgtaaatccctaactcagccaatttgtaattttctgaatgcctttcagcatctttttatctgggaaaataatcactttctttaggcagctttgtaaaaaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtaaaaaa