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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGGCCCTCCGCGACGACATCGTTTCGGGCAAGGCCACTTTTGAGGACATCGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaaaaatgaatgtttcttatataatagcaaaattaaaagttttaattgtgtaaagatttggacgtatggtattcttatgaaggatctgataat...

Basic information

species Glycine max
transcript GLYMA02G05560.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G05560.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G047590_T02 (Zea mays), 5'ss of exon 2
AAGGCCCTCCGCGACGACATCGTTTCGGGCAAGGCCACTTTTGAGGACATCGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagt--cgaaaaatgaatgtttcttatataatagcaa-aattaaaagttttaattgtgtaaagatttggacgtatggtattcttatgaaggatctgataat
   || ||||||||| | ||||| || ||  |   |   || |||||| ||||  |      |||||| |||||||| ||||||||||||||||| |||||| |||         | |||  | ||  |  |||          ||   | |    | | |  ||  || |   | ||||   |   |||| | |    |   
CGCGCGCTCCGCGACCAGATCGTCTCCGGTGACCGCGAGTTCGAGGACGTCGCTGCCGAGAACTCCGACTGCAGCTCGGCCAAGCGCGGCGGTGACCTCGgtcagtgctccgtgctaaatcctactgttcaaatcctgctggccaactatataccctctctgtagggtttgctttttggtgagcggttgaatggttgcgt---

upper sequence: GLYMA02G05560.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv04s0023g03190.t01 (Vitis vinifera), 5'ss of exon 1
AAGGCCCTCCGCGACGACATCGTTTCGGGCAAGGCCACTTTTGAGGACATCGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaaaaatgaatgtttcttatataatag-caaaattaaaagttttaattgtgtaaagatttggacgtatggtattcttatgaaggatctgataat
|||||| | |||||||||||| |||| |||||  | |  ||    ||| |||| ||||   |||||||||||||||| |||||||||||||| |||||||||  ||    | |    |  |   | |||  |   |    || |  | |||  |||  | | | |||  ||   ||   |   | || | | |  || || 
AAGGCCATTCGCGACGACATCATTTCTGGCAAATCTAAGTTCTCCGACGTCGCTTCTCAAATCTCCGATTGCAGCTCTGCCAAGCGCGGCGGCGATCTCGgtcggtttttatagctctactctctttatcttcttctgttttgattggtttttttggattagggttttcactcctgccttctctttggatgctgagaaaa-
















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|298196952|gb|HO041695.1|HO041695
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|298194960|gb|HO043432.1|HO043432
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGGTCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|298184887|gb|HO030100.1|HO030100
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254343397|gb|GR857101.1|GR857101
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|31475560|gb|CD417588.1|CD417588
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTTCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|298183680|gb|HO028893.1|HO028893
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|298165516|gb|HO011565.1|HO011565
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|298182165|gb|HO026340.1|HO026340
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|298168378|gb|HO009308.1|HO009308
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|58019222|gb|CX705964.1|CX705964
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|298199022|gb|HO042385.1|HO042385
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254333395|gb|GR841257.1|GR841257
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|6724516|gb|AW308915.1|AW308915
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTGTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254333396|gb|GR841258.1|GR841258
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|31459399|gb|CD401427.1|CD401427
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTTCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|298168168|gb|HO013431.1|HO013431
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGTAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|6848850|gb|AW351140.1|AW351140
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|298188483|gb|HO035176.1|HO035176
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|4405625|gb|AI507774.1|AI507774
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254332276|gb|GR846321.1|GR846321
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|298187838|gb|HO031795.1|HO031795
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|21257272|gb|BQ454160.1|BQ454160
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|254343398|gb|GR857102.1|GR857102
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|120494070|gb|EH222237.1|EH222237
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|151396197|gb|EV266074.1|EV266074
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG
EST: gi|208237808|gb|GE030762.1|GE030762
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTT-GGTCGTGGCCAGATGCAGAAGCCTTTTGTAAGAAGCAACTTT
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTG-AAGAAGCAACTTT
EST: gi|298188251|gb|HO034944.1|HO034944
EST:     CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCG                         GTCCTTTTGGTCGTGGCCAGATGCAGAAGCCCTTTGAAGAAGCAACTTTTG
genomic: CGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaa ... ttgggtgcagGTCCTTTTGGTCGTGGCCAGATGCAGAAGCCTTTTGAAGAAGCAACTTTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGGCCCTCCGCGACGACATCGTTTCGGGCAAGGCCACTTTTGAGGACATCGCCTCTCGCTTCTCCGATTGCAGCTCCGCCAAGCGCGGCGGTGATCTCGgttagtcgaaaaatgaatgtttcttatataatagcaaaattaaaagttttaattgtgtaaagatttggacgtatggtattcttatgaaggatctgataat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattaaa