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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

tggttgtttttctaagtatattttccaaaactacatcattatatcatccatattgaggccttccaaaaaaaaaaaaatatatcatccatattgagaattgctaaaactgattgaccatttttgcagtGGAATTTTCGTATTGGATTCACTCCTAGGGAGGGTTTGGTAATTCATTCAGTAGCCTATATTGATGGAAGTCGGGGACGAAGACCTGTGGCCCATAGATT

Basic information

species Glycine max
transcript GLYMA18G20800.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G20800.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 5
tggttgtttttctaagtatattttcca-aaactacatcattatatcatccatattgaggccttccaaaaaaaaaaaaatatatcatccatattgagaattgctaaaactgattgaccatttttgcagtGGAATTTTCGTATTGGATTCACTCCTAGGGAGGGTTTGGTAATTCATTCAGTAGCCTATATTGATGGAAGTCGGGGACGAAGACCTGTGGCCCATAGATT
            | | ||  ||||    ||| ||  | | |  |  ||| |  || |  ||| | | |            ||||||| || || |   ||  ||   || ||||         ||||||||||||||||||||| ||||| || || ||||||||||| ||| |||| || || ||||||||||| ||||| || |||||| ||||||||||||| | 
-----------gtgattacctttttgggaaagtaggttactggaaaatctaagttcaa-cctgctatatgg-------cttatcatctattttta---tttttattcctcattg---------gcagTGGAATTTTCGTATTGGTTTCACCCCCAGAGAGGGTTTGGTTATTTATTCTGTTGCATATATTGATGGTAGTCGAGGTCGAAGATCTGTGGCCCATAGGT-
















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|151393205|gb|EV263080.1|EV263080
EST:     TGAAGGTCCAAGTTTTCGTGTTAATGGGCACTTCATTGAATGGCAGAAGT                         GGAATTTTCGTATTGGATTCACTCCTAGGGAGGGTTTGGTAATTCATTCAG
genomic: TGAAGGTCCAAGTTTTCGTGTTAATGGGCACTTCATTGAATGGCAGAAGGtggttgtttt ... tttttgcagtGGAATTTTCGTATTGGATTCACTCCTAGGGAGGGTTTGGTAATTCATTCAG
EST: gi|151405414|gb|EV275228.1|EV275228
EST:     TGAAGGTCCAAGTTTTCGTGTTAATGGGCACTTCATTGAATGGCAGAAGT                         GGAATTTTCGTATTGGATTCACTCCTAGGGAGGGTTTGGTAATTCATTCAG
genomic: TGAAGGTCCAAGTTTTCGTGTTAATGGGCACTTCATTGAATGGCAGAAGGtggttgtttt ... tttttgcagtGGAATTTTCGTATTGGATTCACTCCTAGGGAGGGTTTGGTAATTCATTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaatatatcatccatattgagaattgctaaaactgattgaccatttttgcagtGGAATTTTCGTATTGGATTCACTCCTAGGGAGGGTTTGGTAATTCATTCAGTAGCCTATATTGATGGAAGTCGGGGACGAAGACCTGTGGCCCATAGATT
                                          ccattttt  CT-rich tract
     tatatcat  TA-rich tract
















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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggttgtttttctaagtatattttccaaaactacatcattatatcatccatattgaggccttccaaaaaaaaaaaaatatatcatccatattgagaattgctaaaactgattgaccatttttgcagtGGAATTTTCGTATTGGATTCACTCCTAGGGAGGGTTTGGTAATTCATTCAGTAGCCTATATTGATGGAAGTCGGGGACGAAGACCTGTGGCCCATAGATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA