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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAAGGAAGGCGCATTGGCCTCGCCAAAGCCTGCGAAAATCCTACTTGCGCCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgttttgttgctgctgtgttaattttggatttgttttcattttcactgggaaatttgattttttatttttatttttatggaactttgcag

Basic information

species Glycine max
transcript GLYMA16G26150.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G26150.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv05s0020g00020.t01 (Vitis vinifera), 5'ss of exon 3
CGAAGGAAGGCGCATTGGCCTCGCCAAAGCCTGCGAAAATCCTACTTGCGCCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgttttgttgctgctgtgttaattttggatttgttttcattttcactgggaaatttgatttttt-------atttttatttttatggaactttgcag--------------------------
 || ||  ||||  |  ||  |   ||||| || |||||||| ||||||||||| || ||||| ||||||||| |||| || ||||| ||||||||||||||| ||  ||       |       || || |  | || | | | |||   |||| |   || | ||||        | || |   |||||  |  | |  ||                          
TGAGGGGCGGCGGCTAAGCACCAGTAAAGCATGTGAAAATCCAACTTGCGCCGAGATTGGTGACTGCTGCAGCCATCTCAAACTCCCATTTGCAATTGAGgtttgtcattactaaatttgcaaaatatttgttaaattatctgcttttatgctggtatgcttaaattttataataggagttgtgaatttatttatttatatagtaattgctattgtttggccattgaag

upper sequence: GLYMA16G26150.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv05s0020g00570.t01 (Vitis vinifera), 5'ss of exon 2
CGAAGGAAGGCGCATTGGCCTCGCCAAAGCCTGCGAAAATCCTACTTGCGCCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgttttgttgctgctgtgttaattttggatttgttttcattttcactgggaaatttgatttttt-------atttttatttttatggaactttgcag--------------------------
 || ||  ||||  |  ||  |   ||||| || |||||||| ||||||| ||| || ||||| ||||||||| |||| || ||||| ||||||||||||||| ||  ||       |       || || |  | || | | | |||   |||| |   || | ||||        | || |   |||||  |  | |  ||                          
TGAGGGGCGGCGGCTAAGCACCAGTAAAGCATGTGAAAATCCAACTTGCGTCGAGATTGGTGACTGCTGCAGCCATCTCAAACTCCCATTTGCAATTGAGgtttgtcattactaaatttgcaaaatatttgttaaattatctgcttttatgctggtatgcttaaattttataataggagttgtgaatttatttatttatatagtaattgttattgtttggccattgaag
















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|21675460|gb|BQ627811.1|BQ627811
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|209717177|gb|BW657642.1|BW657642
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|192318355|gb|FK007273.1|FK007273
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|15816049|gb|BI788324.1|BI788324
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|15663888|gb|BI701259.1|BI701259
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|254339930|gb|GR858055.1|GR858055
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|298172737|gb|HO019777.1|HO019777
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|192332022|gb|FK024538.1|FK024538
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|192306088|gb|FG996548.1|FG996548
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|8286529|gb|BE024088.1|BE024088
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|213606235|gb|DB961351.1|DB961351
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|33388581|gb|CA851788.1|CA851788
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|192332021|gb|FK024537.1|FK024537
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|298193197|gb|HO033631.1|HO033631
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
EST: gi|192306087|gb|FG996547.1|FG996547
EST:     CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAG                         ATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG
genomic: CCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgtt ... aactttgcagATAGACAAGGCGTACCCTCGTGATTTCATGCAGAGAGGGCGCGTGAGGGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGAAGGAAGGCGCATTGGCCTCGCCAAAGCCTGCGAAAATCCTACTTGCGCCGAAATCGGTGATTGCTGCAGCTATCTGAAGCTCCCTTTTGCAATTGAGgttcgttgttttgttgctgctgtgttaattttggatttgttttcattttcactgggaaatttgattttttatttttatttttatggaactttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC