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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtcattttttaaagttaccctggattattccaaatttagaatttgctcataatctttcttgtactttttgttgaatactaacattatcttcatgcaacagTTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCAGTTTGCTGTCGGACTGTCTGATGGTGGAGTTCATGTTTTTGAACCCCTT

Basic information

species Glycine max
transcript GLYMA07G03180.1
intron # 23
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|16344769|gb|BI970364.1|BI970364
EST:     AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAG                         TTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA
genomic: AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAGgtaacctttt ... catgcaacagTTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA
EST: gi|21602471|gb|BQ612802.1|BQ612802
EST:     AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAG                         TTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA
genomic: AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAGgtaacctttt ... catgcaacagTTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA
EST: gi|6482439|gb|AW201698.1|AW201698
EST:     AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAG                         TTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA
genomic: AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAGgtaacctttt ... catgcaacagTTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA
EST: gi|51341178|gb|CO982495.1|CO982495
EST:     AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAG                         TTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA
genomic: AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAGgtaacctttt ... catgcaacagTTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA
EST: gi|16346696|gb|BI972291.1|BI972291
EST:     AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAG                         TTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA
genomic: AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAGgtaacctttt ... catgcaacagTTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA
EST: gi|16348818|gb|BI974413.1|BI974413
EST:     AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAG                         TTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA
genomic: AGATTACGTTGTCGGATCAATCCTTCTTCATATCTTCCTGCAAGTGTCAGgtaacctttt ... catgcaacagTTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcataatctttcttgtactttttgttgaatactaacattatcttcatgcaacagTTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCAGTTTGCTGTCGGACTGTCTGATGGTGGAGTTCATGTTTTTGAACCCCTT
                              tactaac  putative branch site (score: 0)
                                      ttatcttc  CT-rich tract
                            aatactaacattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcattttttaaagttaccctggattattccaaatttagaatttgctcataatctttcttgtactttttgttgaatactaacattatcttcatgcaacagTTCCAACACACAACCACTTGTAATCGCTGCACACCCTCAAGAACCAAATCAGTTTGCTGTCGGACTGTCTGATGGTGGAGTTCATGTTTTTGAACCCCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - -ccctgga
- - - - - - - - - - - - - - -ccaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actaaca