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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACTCAGCATTGCTGCAGCCAAAGTCTATCTGGAGTGCAGAAAAATCTCATGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatatatattatatactagaatagtcagatgtggttgtcctggtttatctttgatgttaagtagtatcaggctatattttgtatagttcatccttatatcattctgttctttcttttggaagg

Basic information

species Glycine max
transcript GLYMA18G46610.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G46610.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv15s0046g02700.t01 (Vitis vinifera), 5'ss of exon 6
-CACTCAGCATTGCTGCAGCCAAAGTCTATCTGGAGTGCAGAAAAATCTCATGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatatatattatatactagaatagtcagatgtggttgtcctggtttatctttgatgttaagtagtatcaggctatattttgtatagttcatccttatatcattctgttctttcttttggaagg
 || |   |  | ||||||||||  || || |||| |||||| ||| | | |||  ||||||||||||||||||  |||||||| ||||| |||||||| ||    || |  | ||  |   ||| ||     ||| || |||     | ||  |||| |  ||  |  |  |    |   || | || |  || |||||   || |                     
ACATTGCACCCTACTGCAGCCAATATCAATATGGAATGCAGATAAAGCACTTGAGGCATGCTCACTTGTGGAGCTCATATTGCACTTGGAGCCTATAGAAgt----atgttcagtacttttaagactatagttatgcggctgtt---atataaatttgtttctatcttttgcctcctttatttatttacacctc-tccttgactctta--------------------
















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|208216700|gb|GE012576.1|GE012576
EST:     TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
EST: gi|192299097|gb|FG990411.1|FG990411
EST:     TGATACATGCTCGCTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
EST: gi|7285538|gb|AW598025.1|AW598025
EST:     TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCCTACAA-TGCTCCAACATTTGGGAAG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCC-TACAAATGCTCCAACATTTGGGAAG
EST: gi|192328575|gb|FK023565.1|FK023565
EST:     TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
EST: gi|12490017|gb|BG043538.1|BG043538
EST:     TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
EST: gi|254319562|gb|GR829074.1|GR829074
EST:     TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
EST: gi|17401910|gb|BM178692.1|BM178692
EST:     TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
EST: gi|192295537|gb|FG988111.1|FG988111
EST:     TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
EST: gi|19453234|gb|BM954644.1|BM954644
EST:     TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAATATTTGGGAAGG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
EST: gi|11413618|gb|BF425629.1|BF425629
EST:     TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCTACACATGCTCCAACATTTGGGAAGG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
EST: gi|298178438|gb|HO024173.1|HO024173
EST:     TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
EST: gi|192298436|gb|FG988452.1|FG988452
EST:     TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGG                         TAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG
genomic: TGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatata ... ttttggaaggTAGACATCTTCCGAGGAATCACTCCTACAAATGCTCCAACATTTGGGAAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACTCAGCATTGCTGCAGCCAAAGTCTATCTGGAGTGCAGAAAAATCTCATGATACATGCTCACTTGTGGAGCATATATTGCATTTGGAACCTATAGAGGtacccatatatattatatactagaatagtcagatgtggttgtcctggtttatctttgatgttaagtagtatcaggctatattttgtatagttcatccttatatcattctgttctttcttttggaagg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA