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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtacatcactgcatcctgatttctaccatgcttaaaccaattattcttttgtttaatatcggttcttattgcttcattgcattgtgacgatcttccttagGAATCTTTCTTCCAACAATCTTCAGGGCGCAATTCCAATAGAACTGTCGCGGATTGGCAATTTGGATACATT

Basic information

species Glycine max
transcript GLYMA17G34380.1
intron # 17
splice site 3'
intron type U2

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|193692557|gb|FK627676.1|FK627676
EST:     AATGGATCAATTCCCCCTTCTTTGCAGAGTTTGGAGAGCATGACCTCTTT                         GAATCTTTCTTCCAACAATCTTCAGGGCGCAATTCCAATAGAACTGTCGCG
genomic: AATGGATCAATTCCCCCTTCTTTGCAGAGTTTGGAGAGCATGACCTCTTTgtaagtttca ... tcttccttagGAATCTTTCTTCCAACAATCTTCAGGGCGCAATTCCAATAGAACTGTCGCG
EST: gi|193312538|gb|FK275202.1|FK275202
EST:     CCCCTTCTTTGCAGAGTTTGGAGAGCATGACCTCTTT                         GAATCTTTCTTCCAACAATCTTCAGGGCGCAATTCCAATAGAACTGTCGCG
genomic: CCCCTTCTTTGCAGAGTTTGGAGAGCATGACCTCTTTgtaagtttca ... tcttccttagGAATCTTTCTTCCAACAATCTTCAGGGCGCAATTCCAATAGAACTGTCGCG
EST: gi|193399341|gb|FK364801.1|FK364801
EST:     AATGGATCAATTCCCC-TTCTTTGCAGAGTTTGGAGAGCATGACCTCTTT                         GAATCTTTCTTCCAACAATCTTCAGGGCG
genomic: AATGGATCAATTCCCCCTTCTTTGCAGAGTTTGGAGAGCATGACCTCTTTgtaagtttca ... tcttccttagGAATCTTTCTTCCAACAATCTTCAGGGCG
EST: gi|193363851|gb|FK329657.1|FK329657
EST:     CCCTTCTTTGCAGAGTTTGGAGAGCATGACCTCTTT                         GAATCTTTCTTCCAACAATCTTCAGGGCGCAATTCCAATAGAACTGTCGCG
genomic: CCCTTCTTTGCAGAGTTTGGAGAGCATGACCTCTTTgtaagtttca ... tcttccttagGAATCTTTCTTCCAACAATCTTCAGGGCGCAATTCCAATAGAACTGTCGCG
EST: gi|208193231|gb|GD992004.1|GD992004
EST:     AATGGATCAATTCCCCCTTCTTTGCAGAGTTTGGAGAGCATGACCTCTTT                         GAATCTTTCTTCCAACAATCTTCAGGGCGCAATTCCAATAGAACTGTCGCG
genomic: AATGGATCAATTCCCCCTTCTTTGCAGAGTTTGGAGAGCATGACCTCTTTgtaagtttca ... tcttccttagGAATCTTTCTTCCAACAATCTTCAGGGCGCAATTCCAATAGAACTGTCGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttgtttaatatcggttcttattgcttcattgcattgtgacgatcttccttagGAATCTTTCTTCCAACAATCTTCAGGGCGCAATTCCAATAGAACTGTCGCGGATTGGCAATTTGGATACATT
     gtttaat  putative branch site (score: 4)
 tcttcctt  putative PPT
 tttaatat  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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacatcactgcatcctgatttctaccatgcttaaaccaattattcttttgtttaatatcggttcttattgcttcattgcattgtgacgatcttccttagGAATCTTTCTTCCAACAATCTTCAGGGCGCAATTCCAATAGAACTGTCGCGGATTGGCAATTTGGATACATT

- - - cactgca
- - - - - - - cctgatt
- - - - - - - - - - - - -ccatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcattg