Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGGGGAGCTTGGAAGACTCTCTGCATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatccattcttgtggataaattcttcaaactttctgttatgggtttctttggactgtgattgccttacttttgtatgtgtattggttacctatatatggctgcag

Basic information

species Glycine max
transcript GLYMA09G40060.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G40060.2 (Glycine max), 5'ss of exon 6
lower sequence: AT1G01820.1 (Arabidopsis thaliana), 5'ss of exon 6
CTTGGGGAGCTTGGAAGACTCTCTGCATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatccattcttgtggataaattcttcaaactttctgttatgggtttctttggactgtgattgccttacttttgtatgtgtattggttacctatatatggctgcag
 ||||||||||||| || || || |||||||| ||||||||||| |||||  |   ||||||| ||||| || | ||| |  | |  | ||    ||||     | |   ||||||  |||||  |      ||      ||  || | |||||       ||   | | |               
GTTGGGGAGCTTGGTAGGCTGTCAGCATCAATTAAGAAGTTAGAAAAAGAGATAGGGAACAAGGATAAACACCAGgtacgcaagctttcctca-agatattggttcc---ctttct-ctatggagtg---aagaagaaattttgctgatttttgagataacatcattaagcag-------------

upper sequence: GLYMA09G40060.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv15s0048g01890.t01 (Vitis vinifera), 5'ss of exon 6
CTTGGGGAGCTTGGAAGACTCTCTGCATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatccat----tcttgtggataaattcttcaaactttctgttatgggtttctttggactgtgat-tgccttacttttgtatgtgtattggttacctatatatggctgcag
|||||||| |||||||| || |||||||||||||||||||||||||| || || |||   |   |||||||  | |||||||  |  |    |||| ||| |       |  ||   | | |  |   || ||||    | |  | ||| ||  |  | |||| || |||||     || |||| |  |||
CTTGGGGAACTTGGAAGGCTTTCTGCATCAATGAAGAAGTTAGAGAAGGAGCTTAAGGGTAGTGATAAATATCAAgtatgtttactgtatgctcttatggttggtagactagaaaagtttttccttccttcctttcacttctattgtgcattgatcatctatg-gtcttggt-----at-tatgacaccag
















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|17153643|gb|BM143576.1|BM143576
EST:     ATCAATGAAGAAGTTAGAGAAAGATACTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: ATCAATGAAGAAGTTAGAGAAAGAT-CTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|254336246|gb|GR842425.1|GR842425
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|58015330|gb|CX702072.1|CX702072
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|254343225|gb|GR856929.1|GR856929
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|213588887|gb|DB984386.1|DB984386
EST:     ACAAGAATAAATACGAT                         GATGAGCAATTCTGTGCCAATCTAAACAAGTCAAATGAGAGAACTCTATGC
genomic: ACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTAT-C
EST: gi|254324273|gb|GR840590.1|GR840590
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|7691912|gb|AW760029.1|AW760029
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|192323627|gb|FK019038.1|FK019038
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|213589574|gb|DB973217.1|DB973217
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|254343224|gb|GR856928.1|GR856928
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|151394416|gb|EV264287.1|EV264287
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|8403460|gb|BE059094.1|BE059094
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCCATACCGTGCCAAACTAAACAAGTCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCA
EST: gi|120492016|gb|EH220183.1|EH220183
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|254324274|gb|GR840591.1|GR840591
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|13312196|gb|BG405856.1|BG405856
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|193352101|gb|FK316382.1|FK316382
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|58015584|gb|CX702326.1|CX702326
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|254330639|gb|GR841904.1|GR841904
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|7639927|gb|AW734239.1|AW734239
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|21888536|gb|BQ741749.1|BQ741749
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAG
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAG
EST: gi|13480395|gb|BG509738.1|BG509738
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|19269910|gb|BM886166.1|BM886166
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|254336245|gb|GR842424.1|GR842424
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|19347174|gb|BM892054.1|BM892054
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|11412943|gb|BF424954.1|BF424954
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|22927124|gb|BU544263.1|BU544263
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|27425936|gb|CA937456.1|CA937456
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|23732138|gb|BU764224.1|BU764224
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|48575471|gb|CO036420.1|CO036420
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|6724567|gb|AW308966.1|AW308966
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|6071462|gb|AW100849.1|AW100849
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|192316781|gb|FK006484.1|FK006484
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|23057464|gb|BU578138.1|BU578138
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTA
EST: gi|7691181|gb|AW759313.1|AW759313
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
EST: gi|22932789|gb|BU549928.1|BU549928
EST:     CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGAT                         GATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA
genomic: CATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatc ... atggctgcagGATGAGCAATACCGTGCCAAACTAAACAAGTCAAATGAGAGGACTCTATCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTGGGGAGCTTGGAAGACTCTCTGCATCAATGAAGAAGTTAGAGAAAGATCTCAAGAACAAGAATAAATACGATgtatgttatccattcttgtggataaattcttcaaactttctgttatgggtttctttggactgtgattgccttacttttgtatgtgtattggttacctatatatggctgcag

- - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC