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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acggcgtctctttctttcaatcctgaataatctatttacaagtaagcatgaaaggctaatcataattattatgtctgacaactctagttccatcttgtagCAGCAGTGGAAGCTCGAAGAGAGCTCTTGCCGAGGTTTAATATGTGAGCAGGGATGGTCTTTCGGATCACTCCAAGTCAATTTACACAAGTACTCGTGCT

Basic information

species Glycine max
transcript GLYMA20G29820.1
intron # 6
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|193479708|gb|FK448189.1|FK448189
EST:     GTGCTTGCAGTCAATGGGGCTATCAATAGAA                         CAG---TGGAAGCTCGAAGAGAGC
genomic: GTGCTTGCAGTCAATGGGGCTATCAATAGAAgtaagtcttt ... catcttgtagCAGCAGTGGAAGCTCGAAGAGAGC
EST: gi|11689795|gb|BF597471.1|BF597471
EST:     GTTGCTTGCAGTCAATGGGGCTATCAATAGAA                         CAGCAGTGGAAGCTCGAAGAGAGCTCTTGCCGAGGTTTAATATGTGAGCAG
genomic: GT-GCTTGCAGTCAATGGGGCTATCAATAGAAgtaagtcttt ... catcttgtagCAGCAGTGGAAGCTCGAAGAGAGCTCTTGCCGAGGTTTAATATGTGAGCAG
EST: gi|51343595|gb|CO984328.1|CO984328
EST:     GTGCTTGCAGTCAATGGGGCTATCAATAGAA                         CAG---TGGAAGCTCGAAGAGAGCTCTTGCCGAGGTTTAATATGTGAGCAG
genomic: GTGCTTGCAGTCAATGGGGCTATCAATAGAAgtaagtcttt ... catcttgtagCAGCAGTGGAAGCTCGAAGAGAGCTCTTGCCGAGGTTTAATATGTGAGCAG
EST: gi|193528423|gb|FK483953.1|FK483953
EST:     GTGCTTGCAGTCAATGGGGCTATCAATAGAA                         CAG---TGGAAGCTCGAAGAGAGC
genomic: GTGCTTGCAGTCAATGGGGCTATCAATAGAAgtaagtcttt ... catcttgtagCAGCAGTGGAAGCTCGAAGAGAGC
EST: gi|208326330|gb|GE120712.1|GE120712
EST:     GTGCTTGCAGTCAATGGGGCTATCAATAGAA                         CAG---TGGAAGCTCGAAGAGAGCTCTTGCCGAGGTTTAATATGTGAGCAG
genomic: GTGCTTGCAGTCAATGGGGCTATCAATAGAAgtaagtcttt ... catcttgtagCAGCAGTGGAAGCTCGAAGAGAGCTCTTGCCGAGGTTTAATATGTGAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatgaaaggctaatcataattattatgtctgacaactctagttccatcttgtagCAGCAGTGGAAGCTCGAAGAGAGCTCTTGCCGAGGTTTAATATGTGAGCAGGGATGGTCTTTCGGATCACTCCAAGTCAATTTACACAAGTACTCGTGCT
                           gtctgac  putative branch site (score: 3)
                                          ttccatctt  putative PPT
           taatcataattattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acggcgtctctttctttcaatcctgaataatctatttacaagtaagcatgaaaggctaatcataattattatgtctgacaactctagttccatcttgtagCAGCAGTGGAAGCTCGAAGAGAGCTCTTGCCGAGGTTTAATATGTGAGCAGGGATGGTCTTTCGGATCACTCCAAGTCAATTTACACAAGTACTCGTGCT

- - - - - - - - - - tcctgaa
- - - - - - - - - - - - - - - - - - - - - - -gcatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctgaca