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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttttattttctaattcaaatgagtcttgaatcgatgtggttggaagccatttgaaaactgtgttttggttcacttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTTTGAGTATCAG

Basic information

species Glycine max
transcript GLYMA06G15510.3
intron # 3
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|151406343|gb|EV276158.1|EV276158
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
EST: gi|213614361|gb|DB966963.1|DB966963
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
EST: gi|298181786|gb|HO025961.1|HO025961
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
EST: gi|19271025|gb|BM887281.1|BM887281
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
EST: gi|16284806|gb|BI946280.1|BI946280
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTG
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
EST: gi|298173478|gb|HO016814.1|HO016814
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
EST: gi|16996720|gb|BM086092.1|BM086092
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
EST: gi|16348135|gb|BI973730.1|BI973730
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
EST: gi|15589927|gb|BI674543.1|BI674543
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
EST: gi|209727965|gb|BW666685.1|BW666685
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
EST: gi|16283929|gb|BI945815.1|BI945815
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGGCTG-TCTTGGAATTAGAAGT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTG-CTGGTCTTGTAATTAGAAGT
EST: gi|19347243|gb|BM892123.1|BM892123
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
EST: gi|16283309|gb|BI945483.1|BI945483
EST:     GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTG                         ATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT
genomic: GTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagttttt ... ttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcgatgtggttggaagccatttgaaaactgtgttttggttcacttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTTTGAGTATCAG
                                        ttcacttttttcc  CT-rich tract
                    atttgaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtttttattttctaattcaaatgagtcttgaatcgatgtggttggaagccatttgaaaactgtgttttggttcacttttttccagATGATGAGGAATCAATACAGTGTTTCCTTGCTGGTCTTGTAATTAGAAGTTTGAGTATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT