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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAACAAGGCAAAAGTAGGTTCTCAACAATGGAGAAAAGCTCAAGAGTCTTTGCTTAGTTTGGAGAAGAGAAATGCTGCTTCTGTGGATACTATAGTTAGgtaggttttgtattccttaataagatgaaaacagttgaaagacaatacattttgtcaacctttttttttttttttaacttttgctatgtatggccag

Basic information

species Glycine max
transcript GLYMA15G04830.1
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 20
TCAACAAGGCAAAAGTAGGTTCTCAACAATGGAGAAAAGCTCAAGAGTCTTTGCTTAGTTTGGAGAAGAGAAATGCTGCTTCTGTGGATACTATAGTTAGgtaggtt---ttgtattccttaataagatgaaaacagttgaaagacaatacattttgtcaacctttttttttttttttaacttttgctatgtatggccag
|  | ||||||||| | ||| | ||||||||||| || |||||||| || ||||||||| |||| || ||||||| |||||| |||||  | || ||| |||| | |   |  |  | | ||  ||| | || |  |||    |   ||      |    |  | ||  ||  |||||| |   |||             
TGGAGAAGGCAAAAATGGGTACACAACAATGGAGGAATGCTCAAGAATCCTTGCTTAGTCTGGAAAACAGAAATGTTGCTTCAGTGGAGTCCATTGTTCGgtaagctacttcctgcttcctataaagttcaatatggttcccggtgcatgagccattgacatatattccttcctttttatcacctgcag-----------
















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|46492936|gb|CN472492.1|CN472492
EST:     TTGCTTAGTTTGGAGAAGAGAAATGCTGCTTCTGTGGATACTATAGTTAG                         GGGAGGAATGGAAGC
genomic: TTGCTTAGTTTGGAGAAGAGAAATGCTGCTTCTGTGGATACTATAGTTAGgtaggttttg ... gtatggccagGGGAGGAATGGAAGC
EST: gi|207701279|gb|GD683826.1|GD683826
EST:     TTGCTTAGTTTGGAGAAGAGAAATGCTGCTTCTGTGGATACTATAGTTAG                         GGGAGGAATGGAAGCTAATCATGCCCTACGTGCCCGATTCTC
genomic: TTGCTTAGTTTGGAGAAGAGAAATGCTGCTTCTGTGGATACTATAGTTAGgtaggttttg ... gtatggccagGGGAGGAATGGAAGCTAATCATGCCCTACGTGCCCGATTCTC
EST: gi|192315490|gb|FK009236.1|FK009236
EST:     TTGCTTAGTTTGGAGAAGAGAAATGCTGCTTCTGTGGATACTATAGTTAG                         GGGAGGAATGGAAGCTAATCATGCCCTACGTGCCCGATTCTCCAGTGCTGT
genomic: TTGCTTAGTTTGGAGAAGAGAAATGCTGCTTCTGTGGATACTATAGTTAGgtaggttttg ... gtatggccagGGGAGGAATGGAAGCTAATCATGCCCTACGTGCCCGATTCTCCAGTGCTGT
EST: gi|151398281|gb|EV267865.1|EV267865
EST:     TTGCTTAGTTTGGAGAAGAGAAATGCTGCTTCTGTGGATACTATAGTTAG                         GGGAGGAATGGAAGCTAATCATGCCCTACGTGCCCGATTCTCCAGTGCTGT
genomic: TTGCTTAGTTTGGAGAAGAGAAATGCTGCTTCTGTGGATACTATAGTTAGgtaggttttg ... gtatggccagGGGAGGAATGGAAGCTAATCATGCCCTACGTGCCCGATTCTCCAGTGCTGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCAACAAGGCAAAAGTAGGTTCTCAACAATGGAGAAAAGCTCAAGAGTCTTTGCTTAGTTTGGAGAAGAGAAATGCTGCTTCTGTGGATACTATAGTTAGgtaggttttgtattccttaataagatgaaaacagttgaaagacaatacattttgtcaacctttttttttttttttaacttttgctatgtatggccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT