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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACTGTTACCATACAAGAAGCAAGAGGTGTTCCTGGGGAGATGACAGTTGAAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactgatcttggttttctaatcaatttgaaatcttttcaatccgtaagatgctgcatgttttttttaatcttaatatgaaattattcagttaaaat...

Basic information

species Glycine max
transcript GLYMA03G40840.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G40840.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os03g42900.1 (Oryza sativa), 5'ss of exon 6
TACTGTTACCATACAAGAAGCAAGAGGTGTTCCTGGGGAGATGACAGTTGAAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgta-atactgat-cttggttttctaatca--atttgaaatcttttcaatccgtaagatg---ctgcatgtttt-ttttaatcttaatatgaaattattcagttaaaat
 || || || || || |||   |||||||  |||||||||||||||||||| || | ||| | ||| || ||||||||||| || ||||||||| | |||||| ||  |  | | || | ||||  ||   | ||| | |  | |    |  |    ||   ||||||| ||  ||| | | ||  | |    || ||||        
AACAGTAACTATTCAGGAAAGCAGAGGTGCACCTGGGGAGATGACAGTTGAGATAATTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtatattttcttgcatgctattctgttccttacttgtatttgtattgtcctatgttctgcttctgcatgcttcatttcattgtttttttcccttttttca--------

upper sequence: GLYMA03G40840.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv14s0081g00440.t01 (Vitis vinifera), 5'ss of exon 7
TACTGTTACCATACAAGAAGCAAGAGGTGTTCCTGGGGAGATGACAGTTGAAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactgatcttggttttcta-atcaatttgaaatcttttcaatccgtaagatgctgcatgttttttttaatcttaatatgaaattattcagt-taaaat-----
 |||||||||||||| ||| |||| |||||||||||||| ||||| ||||| || | |||||||||||| ||||||||| |||| |||||||| ||||||| | |  |  ||   |||||  | | ||| |||     || ||  |  |  | ||  ||||  ||   |||      |  |||| |||  | |   | | ||     
AACTGTTACCATACAGGAAACAAGGGGTGTTCCTGGGGAAATGACTGTTGAGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcctccctgtttttgataccaagttgttggtttgtc--tttgcta-atattgcagtttccatttg----cataatgacattgcttaacattagatcattg
















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|207709222|gb|GD691996.1|GD691996
EST:     AGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|19347622|gb|BM892480.1|BM892480
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|7693098|gb|AW761196.1|AW761196
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|15286643|gb|BI470534.1|BI470534
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|192331608|gb|FK019969.1|FK019969
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|6846986|gb|AW349276.1|AW349276
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|208059868|gb|GD857842.1|GD857842
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|208175609|gb|GD973406.1|GD973406
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCA
EST: gi|12687962|gb|BG154237.1|BG154237
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|193463246|gb|FK428654.1|FK428654
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|31311368|gb|CD396571.1|CD396571
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|4314126|gb|AI461245.1|AI461245
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAG
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAG
EST: gi|193688669|gb|FK629634.1|FK629634
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|192328162|gb|FK020423.1|FK020423
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGC
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGC
EST: gi|193711267|gb|FK643876.1|FK643876
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|192325182|gb|FK019098.1|FK019098
EST:     AAATCAGAGGAACTGCTTCTCAAGTCCAAACAACACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|15286056|gb|BI469947.1|BI469947
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|16105469|gb|BI893209.1|BI893209
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|207698915|gb|GD680748.1|GD680748
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|16345362|gb|BI970957.1|BI970957
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|51343089|gb|CO983822.1|CO983822
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|7587865|gb|AW703672.1|AW703672
EST:     GCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: GCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
EST: gi|254332499|gb|GR846437.1|GR846437
EST:     AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAG                         AATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA
genomic: AAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactga ... tgtggtgcagAATTTTATGGCTGAAGCTGCAGCTGCAGCTGCAGCACCAGCACAGCCGCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACTGTTACCATACAAGAAGCAAGAGGTGTTCCTGGGGAGATGACAGTTGAAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactgatcttggttttctaatcaatttgaaatcttttcaatccgtaagatgctgcatgttttttttaatcttaatatgaaattattcagttaaaat

- - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA