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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcgtgataatttaaactttgcaatcacgaaccatatgttgattaaagggtaacgggctttagattttaataatataatatattaatttgtttaatcgcagATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAATTACATGGCAGGATGGTTACCATGAAAGAGTGTCAAGTGTGGAGCATAA

Basic information

species Glycine max
transcript GLYMA11G36890.1
intron # 7
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|208314543|gb|GE113879.1|GE113879
EST:     GGCCATGCTCTCTTTCGACCATTGGACTGTGAGCCAACCTTACAAATTGG                         ATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAA
genomic: GGCCATGCTCTCTTTCAACCATTGGACTGTGAGCCAACCTTACAAATTGGgtattacttt ... ttaatcgcagATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAA
EST: gi|208138943|gb|GD934685.1|GD934685
EST:     CCAACCTTACAAATTGG                         ATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAA
genomic: CCAACCTTACAAATTGGgtattacttt ... ttaatcgcagATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAA
EST: gi|18734332|gb|BM528121.1|BM528121
EST:     GGCCATGCTCTCTTTCAACCATTGGACTGTGAGCCAACCTTACAAATTGG                         ATATCATCCTGATCCAGTATCAGTGGTGTCAGAAAGCCCAAGCATG
genomic: GGCCATGCTCTCTTTCAACCATTGGACTGTGAGCCAACCTTACAAATTGGgtattacttt ... ttaatcgcagATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATG
EST: gi|193560161|gb|FK518880.1|FK518880
EST:     GGCCATGCTCTCTTTCAACCATTGGACTGTGAGCCAACCTTACAAATTGG                         ATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAA
genomic: GGCCATGCTCTCTTTCAACCATTGGACTGTGAGCCAACCTTACAAATTGGgtattacttt ... ttaatcgcagATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAA
EST: gi|193644202|gb|FK592523.1|FK592523
EST:     CTGTGAGCCAACCTTACAAATTGG                         ATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAA
genomic: CTGTGAGCCAACCTTACAAATTGGgtattacttt ... ttaatcgcagATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAA
EST: gi|193342947|gb|FK307711.1|FK307711
EST:     GGCCATGCTCTCTTTCAACCATTGGACTGTGAGCCAACCTTACAAATTGG                         ATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAA
genomic: GGCCATGCTCTCTTTCAACCATTGGACTGTGAGCCAACCTTACAAATTGGgtattacttt ... ttaatcgcagATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agggtaacgggctttagattttaataatataatatattaatttgtttaatcgcagATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAATTACATGGCAGGATGGTTACCATGAAAGAGTGTCAAGTGTGGAGCATAA
                                        tttgttt  CT-rich tract
 tttagattttaataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcgtgataatttaaactttgcaatcacgaaccatatgttgattaaagggtaacgggctttagattttaataatataatatattaatttgtttaatcgcagATATCATCCTGATCCAGTATCAGTGGTGTCAGAAGGCCCAAGCATGAATAATTACATGGCAGGATGGTTACCATGAAAGAGTGTCAAGTGTGGAGCATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - caatcac
- - - - - - - - - - - - - - - ccatatg