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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCGCTCTGAATGATAGACTCCTTGTTTCAAAGGATCTGTGGCCGTTTGGGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccacttcaaccatgtaaacattacatgttatagttttgaactcatttcaaaagggctttcattaaaggcaataagaagataaatgcattgatct...

Basic information

species Glycine max
transcript GLYMA12G35840.1
intron # 9
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|7590183|gb|AW705941.1|AW705941
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|58023048|gb|CX709789.1|CX709789
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|9984467|gb|BE658575.1|BE658575
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|192299272|gb|FG990726.1|FG990726
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|58014344|gb|CX701086.1|CX701086
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|105633398|gb|DW246761.1|DW246761
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|58017718|gb|CX704460.1|CX704460
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|16347534|gb|BI973129.1|BI973129
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGG
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGG
EST: gi|6227725|gb|AW156324.1|AW156324
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|15813223|gb|BI785498.1|BI785498
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAGCTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|16348757|gb|BI974352.1|BI974352
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|58022689|gb|CX709430.1|CX709430
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|58021059|gb|CX707801.1|CX707801
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCTTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|10234113|gb|BE803001.1|BE803001
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTATGAAACTCCTACTTCAT                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|16997193|gb|BM086565.1|BM086565
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
EST: gi|17963472|gb|BM270221.1|BM270221
EST:     GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAG                         GTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA
genomic: GGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccac ... gtacttgtagGTGGCTGGACACAAGGAAATTCTTGAAGGGGACCCTTACTTGAAGCAAAGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCCGCTCTGAATGATAGACTCCTTGTTTCAAAGGATCTGTGGCCGTTTGGGGATCAATTGAGGAACAAATATGAAGAAACTAGGAAACTCCTACTTCAGgtaatgccacttcaaccatgtaaacattacatgttatagttttgaactcatttcaaaagggctttcattaaaggcaataagaagataaatgcattgatct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA