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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAGCATGTACAATGCTGAGAAAAGGGGAAAGCGCCAAGTCATGATTCGGCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctctcagtaatcaaagtttttatttttattttctgtttaattattatagtttgtgtattgaaattgttgttgtgttcgggtgattttttgtttag

Basic information

species Glycine max
transcript GLYMA07G38520.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G38520.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv08s0040g02460.t01 (Vitis vinifera), 5'ss of exon 2
AAGAGCATGTACAATGCTGAGAAAAGGGGAAAGCGCCAAGTCATGATTCGGCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct-cagtaatcaaagtttttatttttattt-tctgtttaattattatagttt--gtgtattga---aattgttgttgtgttcgggtgattttt--tgtttag---------------------------------
||||||||||| ||||| |||||  |||||||||| || || |||||  | || ||||| ||||| ||| |||| || ||| |||| |||||||||||||||   |   |  || |   |   | |||||| |  |   | | |||  ||  ||  ||||   ||| | ||   || | |   ||        | |||| |  |||||                                   
AAGAGCATGTATAATGCAGAGAAGCGGGGAAAGCGACAGGTTATGATCAGACCTTCCTCGAAAGTTATTGTCAAGTTTCTTCTGGTTATGCAGAAGCACGgttagtgcatgtagcacctattttatttattctcttcgatttctttcgtttctactgttttgatgtgtcgattcaagtatgagtgaaaattaataatttatattgtttgatgtgtcaacatcatctctgcctttggcctgcag
















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|6133914|gb|AW132307.1|AW132307
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGGTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|298184105|gb|HO029318.1|HO029318
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|298166619|gb|HO010058.1|HO010058
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|193349469|gb|FK318587.1|FK318587
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTAGGTAAAATC
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCT-GGTAAAATC
EST: gi|298196981|gb|HO041748.1|HO041748
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATACAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|16284410|gb|BI946072.1|BI946072
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|19268708|gb|BM884964.1|BM884964
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|193612386|gb|FK560961.1|FK560961
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|16280654|gb|BI944077.1|BI944077
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|192322844|gb|FK014775.1|FK014775
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|298168973|gb|HO020277.1|HO020277
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|298198924|gb|HO042287.1|HO042287
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|16279110|gb|BI943263.1|BI943263
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|16277146|gb|BI942227.1|BI942227
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|193467448|gb|FK432561.1|FK432561
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|209725800|gb|BW657984.1|BW657984
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|26268251|gb|CA819314.1|CA819314
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|192301517|gb|FG994757.1|FG994757
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|192323402|gb|FK018993.1|FK018993
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|298170922|gb|HO015898.1|HO015898
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|16281501|gb|BI944520.1|BI944520
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|16996759|gb|BM086131.1|BM086131
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|298197436|gb|HO044915.1|HO044915
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|31474829|gb|CD416857.1|CD416857
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|298175576|gb|HO018287.1|HO018287
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|193600319|gb|FK554196.1|FK554196
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACA                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|15812952|gb|BI785227.1|BI785227
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|16282413|gb|BI945003.1|BI945003
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
EST: gi|208130537|gb|GD932860.1|GD932860
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAG
EST: gi|16278609|gb|BI942992.1|BI942992
EST:     GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACG                         GATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG
genomic: GCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctct ... ttttgtttagGATACATTGGAGAGTTTGAGTATGTTGATGACCACAGGGCTGGTAAAATCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGAGCATGTACAATGCTGAGAAAAGGGGAAAGCGCCAAGTCATGATTCGGCCATCCTCCAAAGTCATTATCAAATTCCTTTTGGTGATGCAGAAGCACGgtatatctctcagtaatcaaagtttttatttttattttctgtttaattattatagtttgtgtattgaaattgttgttgtgttcgggtgattttttgtttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC