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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACCTTCAAATGTAACCAAACAGAGGGTTGAAGCTGCAAAGCAGTATATAGAAAATCATTATAAGAAGCAGATGCAAAGCCTGCAGGAGAGGAAGGAAAGgtatctttacttcaatttatgtattatgggtcttgatgacaatctaatataatgttattaaagatttttgtaccatataaagtagtttgttttagcatgc...

Basic information

species Glycine max
transcript GLYMA02G00580.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G00580.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv05s0049g01220.t01 (Vitis vinifera), 5'ss of exon 1
CACCTTCAAATGTAACCAAACAGAGGGTTGAAGCTGCAAAGCAGTATATAGAAAATCATTATAAGAAGCAGATGCAAAGCCTGCAGGAGAGGAAGGAAAGgtatctttacttcaatttatgtattatgggtcttgatgacaatctaatataatgttattaaagatttttgta-ccatataaagtagtttgttttagcatgc
| || |||||||| ||||| |||| ||||| |||||||||||||||||||||||| ||||||||| |||||||| | |  || ||||||||||||||  |||||   | |     || || ||| |  |  |||| | | ||| |  |    | ||    |   || || |   || |  | ||  |    | |       
CGCCCTCAAATGTGACCAAGCAGAAGGTTGCAGCTGCAAAGCAGTATATAGAAAACCATTATAAGGAGCAGATGAAGAATCTTCAGGAGAGGAAGGAGCGgtatggcttccattcttcatctataaatgtacttggt-agaatttgttgcttttttccccacatttattttggtcagaagatgtgatacagtatctttgat
















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|208160913|gb|GD965551.1|GD965551
EST:     GAAAATCATTATAAGAAGCAGATGCAAAGCCTGCAGGAGAGGAAGGAAAG                         ACGTAATATGCTAGAGAAGAAGTTGGCTGATGCCGAAGTCTCTGAGGAAGA
genomic: GAAAATCATTATAAGAAGCAGATGCAAAGCCTGCAGGAGAGGAAGGAAAGgtatctttac ... tttttggcagACGTAATATGCTAGAGAAGAAGTTGGCTGATGCCGAAGTCTCTGAGGAAGA




















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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACCTTCAAATGTAACCAAACAGAGGGTTGAAGCTGCAAAGCAGTATATAGAAAATCATTATAAGAAGCAGATGCAAAGCCTGCAGGAGAGGAAGGAAAGgtatctttacttcaatttatgtattatgggtcttgatgacaatctaatataatgttattaaagatttttgtaccatataaagtagtttgttttagcatgc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA