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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATATTGGCTCCAACATTGAGAACTCCCATGCAGCAACTGCACAAGCAAAATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatcaagtttcttattgcaattttattactctttgtaaatcttaacctgcttccatgaaatgaatttttatatgtgtaatctccgaaggaggta...

Basic information

species Glycine max
transcript GLYMA16G08200.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G08200.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv02s0012g01850.t01 (Vitis vinifera), 5'ss of exon 6
TGATATTGGCTCCAACATTGAGAACTCCCATGCAGCAACTGCACAAGCAAAATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatcaagtttcttattgcaattttattactctttgtaaatcttaacctgcttccatgaaatgaattttta-tatgtgtaatctccgaaggaggta---------
|||||||||||||||||||||     |||| || ||||| ||||| |||||||| |||||||||||||| ||||| |||||| |||||||||| ||| ||||||| | | || | | | |||          |  |  ||  ||| | |||| |     || ||      |||| | |    || || || |  | |||           
TGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAAAATCCCAACTTGCAAAAGCATCAAAGACCCAACGATCAAATTCATCTCTGgtaatct-tgaactctttaatt---------ctttttcttaaaaagcataacttcacaacaggaggcactttttaactgcaggtcatttctgtggtaggaccagttaaat
















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|6666502|gb|AW277896.1|AW277896
EST:     AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTT-GGTGATTTT-GGGATTGTGCT-CTCATCGTGATCATA
genomic: AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
EST: gi|9564950|gb|BE474459.1|BE474459
EST:     AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTTTTGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
genomic: AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
EST: gi|15000694|gb|BI321508.1|BI321508
EST:     AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
genomic: AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
EST: gi|209696534|gb|BW683186.1|BW683186
EST:     TCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCAATCGTGATCAT
genomic: TCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTC-ATCGTGATCAT
EST: gi|21888894|gb|BQ742107.1|BQ742107
EST:     AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
genomic: AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
EST: gi|151398998|gb|EV268869.1|EV268869
EST:     AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTTTGGTGATTTTTTGGGATTGTGCTTCTCATCGTGATCAT
genomic: AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTT-GGGATTGTGCTTCTCATCGTGATCAT
EST: gi|27809121|gb|CB063543.1|CB063543
EST:     AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
genomic: AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
EST: gi|7232940|gb|AW568291.1|AW568291
EST:     AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
genomic: AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
EST: gi|9819749|gb|BE555262.1|BE555262
EST:     AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
genomic: AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
EST: gi|192315290|gb|FK009610.1|FK009610
EST:     AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
genomic: AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
EST: gi|42722596|gb|CK768495.1|CK768495
EST:     AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
genomic: AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
EST: gi|10254732|gb|BE822498.1|BE822498
EST:     AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTG                         ACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA
genomic: AATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatc ... ttcttcaaagACATGCTTGCTTTTGGTGATTTTTGGGATTGTGCTTCTCATCGTGATCATA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATATTGGCTCCAACATTGAGAACTCCCATGCAGCAACTGCACAAGCAAAATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTTGgtaatatatcaagtttcttattgcaattttattactctttgtaaatcttaacctgcttccatgaaatgaatttttatatgtgtaatctccgaaggaggta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA