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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctctacctctattttttgtctctctcagctccctactctgtggacacatggacttcaacagttgcacctattggccatagttatatttgttcagcatcatatatccccccaagttgaaaattcatttagctgttatctatgatttaacttaatgcaaatgtttaatgtgcag

Basic information

species Glycine max
transcript GLYMA20G22090.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G22090.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv14s0068g00220.t01 (Vitis vinifera), 5'ss of exon 8
ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgc--tctacctctattttttgtctctctcagctccctactctgtggacacatggacttcaacagttgcacctattggccatagttatatttgttcagcatcatatatccccccaagttgaaaattcatttagctgttatctatgatttaacttaatgcaaatgtttaatgtgcag
||   |||||||||||||||||| ||||| ||||  | | ||||||  || ||||| || |||||||||||||||||||||||||||||  |||| |||||  |  | ||  ||  ||||| || |||      | || ||| |  | | | |  || | ||     | |||| |||| || |  || |||    | |  | |   | |||      ||   | ||   |                                               
ATTGATGATGATGAGGTGGAACTCTGGGTGGTTAAGGCAATAACTGTGAAATTAATGGATTGTAAGATGGACCAAATGAATCAAGTTGTGCTTGTGAGgtactccatttagttccctttttagtttctgatttattcc-actttcagcaaagaaagattcca----ctacacc-attgaccttgatt-tatacact-attaactggtttccatttgggtctgatatgagtag---------------------------------------------
















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|208032027|gb|GD827713.1|GD827713
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|27425907|gb|CA937427.1|CA937427
EST:     CTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: CTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|58021081|gb|CX707823.1|CX707823
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|5342719|gb|AI795003.1|AI795003
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|193520423|gb|FK475488.1|FK475488
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|207830206|gb|GD804614.1|GD804614
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTTGGTCAGCACCAATGGCAAGCACTGAGAA
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTG-TTTGGTCAGCACCAATGGCAAGCACTGAGAA
EST: gi|20813000|gb|BQ297478.1|BQ297478
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|193610165|gb|FK565729.1|FK565729
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|6482099|gb|AW201370.1|AW201370
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|23734414|gb|BU765436.1|BU765436
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCG
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCG
EST: gi|208131621|gb|GD926852.1|GD926852
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|15286594|gb|BI470485.1|BI470485
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|19453133|gb|BM954543.1|BM954543
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|31473744|gb|CD415772.1|CD415772
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|58017825|gb|CX704567.1|CX704567
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|31460889|gb|CD402917.1|CD402917
EST:     AGCTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: A-CTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|31561461|gb|CD487299.1|CD487299
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|13790301|gb|BG652892.1|BG652892
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
EST: gi|192294162|gb|FG986251.1|FG986251
EST:     AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAG                         TCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC
genomic: AACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctcta ... taatgtgcagTCATCCTACTGAGCGTGTGTTTGGTCAGCACCAATGGCAAGCACTGAGAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCAGTGATGATGAGGTGGAACTATGGGTAGTTAGAGGATTAACTGCTAACTTAATTGACTGTAAGATGGACCAAATGAATCAAGTTGTAGTTGTCAGgtatgctctacctctattttttgtctctctcagctccctactctgtggacacatggacttcaacagttgcacctattggccatagttatatttgttcagcatcatatatccccccaagttgaaaattcatttagctgttatctatgatttaacttaatgcaaatgtttaatgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA