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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAAGATTCTTTGGCATTCTCATTGAGCATTATGCTGGTGATTTTCCATTATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgactactaagaaatctttggtgatttgtatattctgattatatgttgtacttccctctgctatatctataagaaataaagtgaaaacatgatgc...

Basic information

species Glycine max
transcript GLYMA19G37550.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G37550.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os02g33500.1 (Oryza sativa), 5'ss of exon 7
GGAAAGATTCTTTGGCATTCTCATTGAGCATTATGCTGGTGATTTTCCATTATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgactactaagaaatctttggtgatttgtatattctgattatatgttgtacttccctctgctatatctataagaaataaagtgaaaacatgatgc---------
|||| |||| |||||  | |||||||| || |||||||||||||||||| | |||||| | ||||| ||||||||  || ||||||| || ||     ||||       | ||       ||||| | || |  ||    ||| || ||||  || ||   |       | | |     | |   || | | ||| ||           
GGAACGATTTTTTGGTGTCCTCATTGAACACTATGCTGGTGATTTTCCACTTTGGCTTGCACCAATCCAAGCTCGTATTCTACCTGTGACAGACAATGAGgt------ttgcttcatttactttgatcatctagatgca-tgactacatgtgcta-ttaaattaaaagcacccaacttcagttc-gtaacagcatcatttatctgaaca

upper sequence: GLYMA19G37550.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv12s0057g00400.t01 (Vitis vinifera), 5'ss of exon 8
GGAAAGATTCTTTGGCATTCTCATTGAGCATTATGCTGGTGATTTTCCATTATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaatt--gactactaagaaatctttggtgatttgtatattctgattatatgttgtacttccctctgctatatcta---taagaaataaagtgaaaacatg-atgc--
|||  ||||||||||  ||||||| |||||||||||||| ||||||||| |||||||||||||||| |||||||| |||||||| || || ||  | |||||| |     || |||     | |||    ||||   |      ||| |     | ||||    ||   || | |    | || || ||| |  |    |  |  |  
GGAGCGATTCTTTGGAGTTCTCATAGAGCATTATGCTGGGGATTTTCCACTATGGCTTTCTCCAATCCAAGCTCGGGTTTTACCAGTGACGGACACACAGgtattctcagcttctattgtttttttacaaatttagtttcagacattttcctgagaacttgtggctataatctttgctttgagtaacaaattccatgtgtttacacag
















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|22522505|gb|BU081316.1|BU081316
EST:     TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAG                         CTTGAATATTGCAATGTTGTGACCAACAAACTGAAAATGTATGGCATCCGA
genomic: TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgact ... tctaatgcagCTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
EST: gi|192321124|gb|FK012450.1|FK012450
EST:     TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAG                         CTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
genomic: TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgact ... tctaatgcagCTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
EST: gi|7691979|gb|AW760095.1|AW760095
EST:     TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAG                         CTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
genomic: TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgact ... tctaatgcagCTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
EST: gi|31468711|gb|CD410739.1|CD410739
EST:     TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAG                         CTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
genomic: TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgact ... tctaatgcagCTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
EST: gi|192321123|gb|FK012449.1|FK012449
EST:     TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAG                         CTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
genomic: TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgact ... tctaatgcagCTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
EST: gi|7925049|gb|AW831075.1|AW831075
EST:     TATGGCTNTCTCCAATACAAGCTCGAGTTGTACCTGTTACTGATGCCCAG                         CTTGAATATTGCAATGTTGTGACCAACAAACTTAAA
genomic: TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgact ... tctaatgcagCTTGAATATTGCAATGTTGTGACCAACAAACTTAAA
EST: gi|192318773|gb|FK006235.1|FK006235
EST:     TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAG                         CTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
genomic: TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgact ... tctaatgcagCTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
EST: gi|31469043|gb|CD411071.1|CD411071
EST:     TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAG                         CTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
genomic: TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgact ... tctaatgcagCTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
EST: gi|209719471|gb|BW672030.1|BW672030
EST:     CTGATGCCCAG                         CTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
genomic: CTGATGCCCAGgtaattgact ... tctaatgcagCTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
EST: gi|7924875|gb|AW830901.1|AW830901
EST:     TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAG                         CTTGAATATTGCAATGTTGTGACCAACAAACTTA
genomic: TATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgact ... tctaatgcagCTTGAATATTGCAATGTTGTGACCAACAAACTTA
EST: gi|23064215|gb|BU578988.1|BU578988
EST:     ATGGCTTTCTCCAATACAAGTTCNNNNNNNNACCTGTTACTGATGCCCAG                         CTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA
genomic: ATGGCTTTCTCCAATACAAGCTC-GAGTTTTACCTGTTACTGATGCCCAGgtaattgact ... tctaatgcagCTTGAATATTGCAATGTTGTGACCAACAAACTTAAAATGTATGGCATCCGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAAAGATTCTTTGGCATTCTCATTGAGCATTATGCTGGTGATTTTCCATTATGGCTTTCTCCAATACAAGCTCGAGTTTTACCTGTTACTGATGCCCAGgtaattgactactaagaaatctttggtgatttgtatattctgattatatgttgtacttccctctgctatatctataagaaataaagtgaaaacatgatgc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaataaa