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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGCTTAAAATCATGAATGCGAAGAAAACACTGGAAATTGGAGTATTCACTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatcacattgttgtagtgttgtatatactcaaaaggacaaataaaatatataagaacgagagttaaattgtgtttcttaattttttaaaatatt...

Basic information

species Glycine max
transcript GLYMA05G27960.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G27960.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv01s0010g03460.t01 (Vitis vinifera), 5'ss of exon 2
TCTGCTTAAAATCATGAATGCGAAGAAAACACTGGAAATTGGAGTATTCACTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatcacattgttgtag-tgttgtatatactcaaaagg-acaaataaaatatataagaacgagagtt-----aaattgtgtttcttaattttttaaaatatt-------------------------------------------------------------------------
 || || || ||||||||||| ||||| ||| | ||  ||||||| |||| ||| ||||||||  | || ||||||||||| |||||||| |||||||||| |         |     | |  |  | |  | | | | ||   |    | || |  | |   |  | ||||     | | | | ||    || | |||   |||||                                                                         
GCTTCTAAAGATCATGAATGCCAAGAAGACAATCGAGCTTGGAGTGTTCATTGGTTATTCTCTCTTGGCAACAGCTCTTGCCCTGCCTCAAGATGGCAAGgcaaggctctctagaaaagaaaatagttttcaaatttagaaaacatctttgaatttcagacataaaatagtttttaaagaatatattctaaaactgtttttcatattaaagttttcaaatagaattttgttctcgaaaaaaacaagtgagaaatgttttcaggaagtgttttttgtgcag
















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|120496500|gb|EH224667.1|EH224667
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|120494335|gb|EH222502.1|EH222502
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|120496380|gb|EH224547.1|EH224547
EST:     ATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: ATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|23057239|gb|BU577914.1|BU577914
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|23064307|gb|BU579089.1|BU579089
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|22934232|gb|BU551371.1|BU551371
EST:     GCCTCATGATGGCAAG                         ATNNNAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: GCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|120496499|gb|EH224666.1|EH224666
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|13479213|gb|BG508556.1|BG508556
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|151403065|gb|EV272875.1|EV272875
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|15000285|gb|BI321099.1|BI321099
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|23064557|gb|BU579330.1|BU579330
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|120529047|gb|EH257181.1|EH257181
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|17962915|gb|BM269671.1|BM269671
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|120494453|gb|EH222620.1|EH222620
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGATAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
EST: gi|120496135|gb|EH224302.1|EH224302
EST:     CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAG                         ATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC
genomic: CTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatc ... ggtgcttcagATAACAGCAATTGATGTAAATAGAAAAACATACGAGATTGGATTGCCATTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTGCTTAAAATCATGAATGCGAAGAAAACACTGGAAATTGGAGTATTCACTGGCTATTCTCTTCTTGCCACAGCTCTTGCTCTGCCTCATGATGGCAAGgtaccatatcacattgttgtagtgttgtatatactcaaaaggacaaataaaatatataagaacgagagttaaattgtgtttcttaattttttaaaatatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaataaaa