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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attagttttcattgactatcattttctctggtgcacatatctgttaacaacttgtataaggcggtccatggtatttattgtcaattgtatttgcatacagTGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGAATCTTCTCAGCTCAAAACTTACAATCTCACAGAAAGTGACTTGGTGAAA

Basic information

species Glycine max
transcript GLYMA10G07340.1
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|208040540|gb|GD838204.1|GD838204
EST:     GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAG                         TGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA
genomic: GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAGgtaagatcat ... ttgcatacagTGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA
EST: gi|11413213|gb|BF425224.1|BF425224
EST:     GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAG                         TGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA
genomic: GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAGgtaagatcat ... ttgcatacagTGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA
EST: gi|298180804|gb|HO022243.1|HO022243
EST:     GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAG                         TGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA
genomic: GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAGgtaagatcat ... ttgcatacagTGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA
EST: gi|15814236|gb|BI786511.1|BI786511
EST:     GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAG                         TGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA
genomic: GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAGgtaagatcat ... ttgcatacagTGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA
EST: gi|192314653|gb|FK008483.1|FK008483
EST:     GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAG                         TGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA
genomic: GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAGgtaagatcat ... ttgcatacagTGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA
EST: gi|192314654|gb|FK008484.1|FK008484
EST:     GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAG                         TGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA
genomic: GAATTCAAATACAGATATAACTCCAATGAGAAGGCTGTTGTCCTTTACAGgtaagatcat ... ttgcatacagTGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacaacttgtataaggcggtccatggtatttattgtcaattgtatttgcatacagTGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGAATCTTCTCAGCTCAAAACTTACAATCTCACAGAAAGTGACTTGGTGAAA
 tgttaac  putative branch site (score: 2)
                          tatttattgtcaattg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attagttttcattgactatcattttctctggtgcacatatctgttaacaacttgtataaggcggtccatggtatttattgtcaattgtatttgcatacagTGTTGGGATTCACACAGTCTCCGAATTAAGAGCAATGCAGGAGAGGATGGAATCTTCTCAGCTCAAAACTTACAATCTCACAGAAAGTGACTTGGTGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - -tgcacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatggt