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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGGACCTCATGTCTAACATAGAGGAGAACAAAGATCTGGGACAGATGGACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgggatctgcctttttgcttgcttaaattaaaattaaaatttcactttggatgagataatctcttcagtaagggtgtggtaagtttgttgcct...

Basic information

species Glycine max
transcript GLYMA08G18560.3
intron # 2
splice site 5'
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|8827757|gb|BE211487.1|BE211487
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|31305685|gb|CD390888.1|CD390888
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAGAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|254324562|gb|GR833987.1|GR833987
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|192313316|gb|FK005088.1|FK005088
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|19348889|gb|BM893421.1|BM893421
EST:     AGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: AGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|4313320|gb|AI460439.1|AI460439
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|6072271|gb|AW101658.1|AW101658
EST:     CCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: CCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|193376980|gb|FK340615.1|FK340615
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|27426337|gb|CA937857.1|CA937857
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|192313317|gb|FK005089.1|FK005089
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|11412304|gb|BF424315.1|BF424315
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|193713513|gb|FK654498.1|FK654498
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAAGAAAAAGTNTGGAGGAATG
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAA-GAAAAAGTATGGAGGAATG
EST: gi|10233243|gb|BE802131.1|BE802131
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|6914757|gb|AW396287.1|AW396287
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|7639980|gb|AW734290.1|AW734290
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|254324561|gb|GR833986.1|GR833986
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|31309242|gb|CD394445.1|CD394445
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAGAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|6914456|gb|AW395986.1|AW395986
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|58014741|gb|CX701483.1|CX701483
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|4298166|gb|AI442722.1|AI442722
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
EST: gi|31472363|gb|CD414391.1|CD414391
EST:     ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAG                         GAGGAGTCTGTAAAGAGAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA
genomic: ACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgg ... aaccttgtagGAGGAGTCTGTAAAGAAAAAGTATGGAGGAATGCTGCCCAAAAAGCCACCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGGACCTCATGTCTAACATAGAGGAGAACAAAGATCTGGGACAGATGGACGTGGATGCATCTGATGAGTCAGCTAACATGCCATCACCCCAAAAGCAGgtggtgttgggatctgcctttttgcttgcttaaattaaaattaaaatttcactttggatgagataatctcttcagtaagggtgtggtaagtttgttgcct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgtgg