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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGTACCGATTTTTCTTGAACAAGGATTATGGAAGTCTCTTTTCCTCATTGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttcattcttcaaaattggcattcttacttcatagtgctgtatttaacaatttttgtgcatgaacctaaattattccatttttctcaaccttctatgtatttattag

Basic information

species Glycine max
transcript GLYMA06G14590.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G14590.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g07390.1 (Oryza sativa), 5'ss of exon 5
TTGGTACCGATTTTTCTTGAACAAGGATTATGGAAGTCTCTTTTCCTCATTGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttcattcttcaaaattggcattcttacttcatagtgctgtatttaacaatttttgtgcatgaacctaaattattccatttttctcaaccttctatgtatttattag
 ||||||||||||||| |||||||||| |||||||| || ||||| ||  | || || ||||| || || ||||||||| | |||||||| || || ||||||   |  | | | | |          | |   ||| ||  |   || |||     |  |       |||   |  | || | || |                         
ATGGTACCGATTTTTCCTGAACAAGGAGTATGGAAGCCTATTTTCGTCTCTAACCACTGGATTATACCTTACTTTCAAGTTGACATCAGTTGTGGAAAAGgtactgtaacttccctta----------tttagtttcgtaaggg-atacttagtgcctccta-----aaactccagctgtttccttgtcag----------------------
















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|193696981|gb|FK638851.1|FK638851
EST:     TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|37994656|gb|CF806311.1|CF806311
EST:     TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|193707462|gb|FK647188.1|FK647188
EST:     TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|207794422|gb|GD764746.1|GD764746
EST:     TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCTTAAAAG
genomic: TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCTTAAAAG
EST: gi|193722599|gb|FK662173.1|FK662173
EST:     TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|193323333|gb|FK291655.1|FK291655
EST:     TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|207787365|gb|GD756762.1|GD756762
EST:     TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|193393906|gb|FK358499.1|FK358499
EST:     TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCT
genomic: TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCT
EST: gi|207780436|gb|GD751671.1|GD751671
EST:     GACTACAGGATTGTATCTAAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCTTAAAAGCATTAT
genomic: GACTACAGGATTGTATCTAA-CTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCTTAAAAGCATTAT
EST: gi|193671928|gb|FK616702.1|FK616702
EST:     GACTACAGGATTGTATCTAAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCA
genomic: GACTACAGGATTGTATCTAA-CTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTT-GTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCA
EST: gi|207701528|gb|GD682857.1|GD682857
EST:     TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAG
genomic: TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAG
EST: gi|51342137|gb|CO983398.1|CO983398
EST:     TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
EST: gi|193413170|gb|FK379085.1|FK379085
EST:     TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAG                         GTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT
genomic: TGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttc ... tatttattagGTCCAATGCTTTGTTTCTGCCTTAAAAGCATTATCAAAAAAGGAAGTTCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGGTACCGATTTTTCTTGAACAAGGATTATGGAAGTCTCTTTTCCTCATTGACTACAGGATTGTATCTAACTTTCAAGCTAACATCAGTAGTTGAGAAGgtatgttttcattcttcaaaattggcattcttacttcatagtgctgtatttaacaatttttgtgcatgaacctaaattattccatttttctcaaccttctatgtatttattag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT