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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATTCTTTACTCATCAGTAGTCTACCCACACAACTATGGTTTTATCCCAAGAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgcttaaaaaattattgtttctgatgttgaaccgaaaatgtttgtttccagccaaaatttcaactgtattaaaatgtgaacttttattctgagaag

Basic information

species Glycine max
transcript GLYMA11G07530.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G07530.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os02g47600.2 (Oryza sativa), 5'ss of exon 5
TATTCTTTACTCATCAGTAGTCTACCCACACAACTATGGTTTTATCCCAAGAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgcttaaaaaattattgtttctgatgttgaaccgaaaatgtttgtttccagccaaaatttcaactgtattaaaatgtgaacttttattctgagaag
| ||||||||||||| || || |||||||||||||||||||| || ||| | ||  ||||||| ||| |||| || |||||||| || || || ||||||||| |      | |   ||   ||| | || | || ||  |||||| |           ||||  |||      |||      |    || | | |||| |  
TGTTCTTTACTCATCTGTTGTTTACCCACACAACTATGGTTTCATTCCACGCACACTTTGTGAGGACGGTGACCCCATGGACGTCCTCGTCCTGATGCAGgtaac------tgatggatg--tgtgtgtgttttttaaaagaaaatata----------caaaccttctctaacattgcttctt---tttctctcctgatag-

upper sequence: GLYMA11G07530.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G18230.1 (Arabidopsis thaliana), 5'ss of exon 5
TATTCTTTACTCATCAGTAGTCTACCCACACAACTATGGTTTTATCCCAAGAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgcttaaaaaattattgtttctgatgttgaaccgaaaatgtttgtttccagccaaaatttcaactgtattaaaatgtgaacttttattctgagaag
  |||| ||||||||  | || ||||| |||||||| ||||| |||||  |||| || ||||||||||||||||| ||||| || ||||| || ||||||||       ||      ||  ||   | | ||||| |  | ||  || | ||   ||| ||       ||| |  || | ||   || |  | | | |     
CGTTCTCTACTCATCCATTGTGTACCCCCACAACTACGGTTTCATCCCTCGAACTATCTGTGAAGACAGTGATCCAATGGATGTCCTGGTACTGATGCAGgtgctttctctcgcctcatc-ttagctttcatgttcatacaaacttgat-gtaaacaggcagtgaaataacagacttgagata--aaatactgtgcag-----

upper sequence: GLYMA11G07530.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0023g02050.t01 (Vitis vinifera), 5'ss of exon 4
TATTCTTTACTCATCAGTAGTCTACCCACACAACTATGGTTTTATCCCAAGAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgcttaaaaaattattgtttctgatgttgaaccgaaaatgtttgtttccagccaaaatttcaactgtattaaaat--gtgaacttttattct-gagaag
| |||||||||||||||| || || ||||| ||||||||||| |||||  ||||||| ||||||||||| ||||||||||| || ||| |||||||||||||||      || | | |  ||  |  |  |      |   |  |  | | |||         | || ||   ||| |||||   | || |     ||| | | ||
TGTTCTTTACTCATCAGTTGTTTATCCACATAACTATGGTTTCATCCCTCGAACCATCTGTGAAGACAGCGATCCTATGGATGTCCTGATTCTAATGCAGgtagtgtcatttgacataccatcttaccacaatcatgatacattacatcttttttatttttctaattaaatcttataaaaattcatcaattcgccctctcgtgtag

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|33390382|gb|CA853577.1|CA853577
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|12689521|gb|BG155857.1|BG155857
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|10235681|gb|BE804569.1|BE804569
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAC                         GAACCCGTGCTTGCTGGTTCCTTACTTCGTGCTCGGGCTGTTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|192316515|gb|FK009312.1|FK009312
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|17022265|gb|BM093299.1|BM093299
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|15661703|gb|BI699074.1|BI699074
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|11273956|gb|BF324342.1|BF324342
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|19452855|gb|BM954265.1|BM954265
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|192333273|gb|FK026154.1|FK026154
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|15814337|gb|BI786612.1|BI786612
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|193495770|gb|FK461108.1|FK461108
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|6481455|gb|AW200726.1|AW200726
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|15203687|gb|BI426455.1|BI426455
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATTCTTTACTCATCAGTAGTCTACCCACACAACTATGGTTTTATCCCAAGAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgcttaaaaaattattgtttctgatgttgaaccgaaaatgtttgtttccagccaaaatttcaactgtattaaaatgtgaacttttattctgagaag

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