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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTCTAGTTTGGGACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAGgtacacctgctttatgaaacaatacagtcttaaatatgttttgtactattagaataatgttattttactttggatttttggaag

Basic information

species Glycine max
transcript GLYMA04G00200.1
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G00200.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv00s0585g00030.t01 (Vitis vinifera), 5'ss of exon 15
GGTTCTAGTTTGGGACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAGgtacacctgctttatgaaacaatacagtcttaaatatgttttgtactattagaataatgttattttactttggatttttggaag------------------
||||||||||| || || ||||| || || |||||||| ||||| || |||||||||||||  ||| |  | ||   | |    |||   | |||||| |  | |  |||| | | ||| | | |  |||| |||    |||                       
GGTTCTAGTTTCGGGCAATTTTTCAAACAGTATCTTGAACCAATTAAACTGAATGATGTCAGAgta-agttactgc-ttatgttataacttgttaaatttactcttaactagt-gcatactctgacattaccttgaggcttttttttttctgttctcccctgaag
















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|10254009|gb|BE821775.1|BE821775
EST:     AGTTTTTTAAGCAATATCTTGANNCAATCAAGCTGAATGATGTCAAG                         GTTGATTNGAAATNAATGGATCTGAGCTATTTACTGGAG
genomic: AGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAGgtacacctgc ... tttttggaagGTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
EST: gi|208279807|gb|GE078451.1|GE078451
EST:     GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAG                         GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
genomic: GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAGgtacacctgc ... tttttggaagGTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
EST: gi|17400899|gb|BM177681.1|BM177681
EST:     GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAG                         GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
genomic: GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAGgtacacctgc ... tttttggaagGTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
EST: gi|193578353|gb|FK537573.1|FK537573
EST:     GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAG                         GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
genomic: GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAGgtacacctgc ... tttttggaagGTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
EST: gi|208266208|gb|GE064543.1|GE064543
EST:     GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAG                         GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
genomic: GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAGgtacacctgc ... tttttggaagGTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
EST: gi|207826963|gb|GD801138.1|GD801138
EST:     GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAG                         GTTGATTGGAA-TTAATGGATCTGAGCTATTTACTGGAG
genomic: GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAGgtacacctgc ... tttttggaagGTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
EST: gi|308098353|gb|HO760094.1|HO760094
EST:     AATCAAGCTGAATGATGTCAAG                         GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
genomic: AATCAAGCTGAATGATGTCAAGgtacacctgc ... tttttggaagGTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
EST: gi|14011124|gb|BG726055.1|BG726055
EST:     GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAG                         GTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG
genomic: GACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAGgtacacctgc ... tttttggaagGTTGATTGGAAATTAATGGATCTGAGCTATTTACTGGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTTCTAGTTTGGGACAGTTTTTTAAGCAATATCTTGAGCCAATCAAGCTGAATGATGTCAAGgtacacctgctttatgaaacaatacagtcttaaatatgttttgtactattagaataatgttattttactttggatttttggaag

- - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - AGCTGA