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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAATGCTTGCAAAGGCAGTTGCGACAGAGTGCAATACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttacttacaactttctccccctcttctttagagtatttctattttgtgaatcttaatctaggaaacttaatagtgcttatttttaatggtagtgt...

Basic information

species Glycine max
transcript GLYMA08G09050.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G09050.1 (Glycine max), 5'ss of exon 7
lower sequence: AT2G34560.1 (Arabidopsis thaliana), 5'ss of exon 7
ACAATGCTTGCAAAGGCAGTTGCGACAGAGTGCAATACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttacttacaactttctccccctcttctttagagtatttctattttgtgaatcttaatctaggaaacttaatagtgcttatttttaatggtagtgt-
|| |||||||||||||| ||||| ||||||||||||||||| || || || || |||||||||||||| || ||||||||| ||||     || ||   || ||      |||||    |    ||    |   ||  | ||||    ||||| |  ||| | |     |||| |||| |  |   
ACTATGCTTGCAAAGGCTGTTGCTACAGAGTGCAATACAACATTCTTCAACATCTCAGCCTCATCTGTTGTTAGCAAATGGAGAGgtgaaatattttgtacctttatttactcttaaccatgaaat----aagatgc-agtctt----taggagaaataaaatttgggcttttcaatgtttttcag

upper sequence: GLYMA08G09050.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv10s0003g03500.t01 (Vitis vinifera), 5'ss of exon 7
ACAATGCTTGCAAAGGCAGTTGCGACAGAGTGCAATACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttac--ttacaactttctcc------ccctcttctttagagtatttctattttgtgaatcttaatctaggaaacttaatagtgcttatttttaatggtagtgt
|| |||||||||||||| || || || |||||||| || || ||||| |||||||| || || ||||| |||||||||||||||||  ||| |   ||  ||  || ||       |    || || | | |  |  |  |   | || ||  | ||| ||||||  ||    ||| |  |||  |||  | |
ACTATGCTTGCAAAGGCTGTCGCAACCGAGTGCAAAACCACATTTTTCAATATTTCTGCATCCTCTGTTGTCAGCAAATGGCGAGgtatgtcagagttgaaagattttctaatgatcatgttttttgataatgctgttgctcgttcaacct--agctacgaaactgtat----cttctgatta--ggttctct
















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|58024174|gb|CX710915.1|CX710915
EST:     TACAACNNNNNNNAATATTTCAGCTTCATCTGTAGTCAGCAAATGGCGAG                         GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
genomic: TACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
EST: gi|58023441|gb|CX710182.1|CX710182
EST:     TACAAC-TTTTTTAATATTTCAGCCTCATCCGTAGTCAGCAAATGGCGAG                         GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAAC-TGNCAAGGCATCAT
genomic: TACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTG-CAAGGCATCAT
EST: gi|58024561|gb|CX711302.1|CX711302
EST:     TACAACNNNNNNNAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAG                         GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
genomic: TACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
EST: gi|58023989|gb|CX710730.1|CX710730
EST:     TACAACNNNNNNNAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAG                         GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
genomic: TACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
EST: gi|58018662|gb|CX705404.1|CX705404
EST:     TACAACNNNNNNNAATATTTCAGCTTCATCTGTAGTCAGCAAATGGCGAG                         GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
genomic: TACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
EST: gi|10848344|gb|BF071723.1|BF071723
EST:     TACAACNNNNNNNAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAG                         GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
genomic: TACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
EST: gi|192331318|gb|FK021015.1|FK021015
EST:     TACAACNNNNNNNAATATTTCAGCCTCATCTGTAGTCAGCAAATGGTGAG                         GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
genomic: TACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
EST: gi|58020971|gb|CX707713.1|CX707713
EST:     TACAACNNNNNNNAATATTTCAGCTTCATCTGTAGTCAGCAAATGGCGAG                         GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
genomic: TACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
EST: gi|58021730|gb|CX708471.1|CX708471
EST:     CAGCAAATGNCGAG                         GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
genomic: CAGCAAATGGCGAGgcctgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
EST: gi|58021561|gb|CX708302.1|CX708302
EST:     TACAACNNNNNNNAATATTTCAGCTTCATCTGTAGTCAGCAAATGGCGAG                         GTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG
genomic: TACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttact ... tggactgcagGTGATTCAGAGAAGTTAGTGAAAGTGTTATTTGAACTTGCAAGGCATCATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAATGCTTGCAAAGGCAGTTGCGACAGAGTGCAATACAACTTTTTTTAATATTTCAGCCTCATCTGTAGTCAGCAAATGGCGAGgcctgttacttacaactttctccccctcttctttagagtatttctattttgtgaatcttaatctaggaaacttaatagtgcttatttttaatggtagtgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccccc