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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAGAATGCATTGCCAAAATGAGGCTTTTGTCATTGGTGGATCTTAGCTCTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttatttttggtttctatgtttgtatttgtgttcttcctagcataattgaaatgttgtgacatccctttcag

Basic information

species Glycine max
transcript GLYMA20G22090.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G22090.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv14s0068g00220.t01 (Vitis vinifera), 5'ss of exon 7
TGAAGAATGCATTGCCAAAATGAGGCTTTTGTCATTGGTGGATCTTAGCTCTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttatttttggtttctatgtttgtattt-------gtgttcttcctagca------taattgaaatgttgtgacatccctttcag
|||||| || ||  | || |||||| |  ||||  ||||||||||| ||||||||| |||| | ||||||||||||   || || |  |||||||||  ||||||   || |||| | | | |   | |  ||       |||| |   |||  |      ||| |  | || ||  |  |   || |||
TGAAGACTGTATAACTAAGATGAGGTTAATGTCTCTGGTGGATCTTGGCTCTGATGAATCTTGTCAAATTCCATATTCTCTCATCAAAGACACACTTAGGgtaaaagcatctttgctctttcttactctgcttctaccaggtgtcccatctacaagttggttaaatatattggtgcaattttgtttgcag
















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|58021081|gb|CX707823.1|CX707823
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|8827521|gb|BE211251.1|BE211251
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTAATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTGAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|5342719|gb|AI795003.1|AI795003
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|15337560|gb|BI498216.1|BI498216
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|193610165|gb|FK565729.1|FK565729
EST:     TCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: TCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|6482099|gb|AW201370.1|AW201370
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|23734414|gb|BU765436.1|BU765436
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|208131621|gb|GD926852.1|GD926852
EST:     AACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: AACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|15286594|gb|BI470485.1|BI470485
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|19453133|gb|BM954543.1|BM954543
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|58017825|gb|CX704567.1|CX704567
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|193551332|gb|FK508033.1|FK508033
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|31561461|gb|CD487299.1|CD487299
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|193574339|gb|FK529796.1|FK529796
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATTGGGTAGTTTAGAGGATTAACT
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTAT-GGGTAGTT-AGAGGATTAACT
EST: gi|13790301|gb|BG652892.1|BG652892
EST:     AAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: AAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
EST: gi|192294162|gb|FG986251.1|FG986251
EST:     CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAG                         ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC
genomic: CTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttat ... tccctttcagATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAAGAATGCATTGCCAAAATGAGGCTTTTGTCATTGGTGGATCTTAGCTCTGATGGATCTGGCCAAATTCCATATGAACTTATTAGGGACACACTTCAGgtaaatttatttttggtttctatgtttgtatttgtgttcttcctagcataattgaaatgttgtgacatccctttcag

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