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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAATCCACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttatatatgttggcatttctgccccttcctccttaaatcattcctcttcattcaacctcttgttttcctgggttagattgtagttttatttttccttgtttggtctgacctttgacag

Basic information

species Glycine max
transcript GLYMA20G22600.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G22600.3 (Glycine max), 5'ss of exon 7
lower sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 7
GTCAATCCACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttatatatgttggcatttctgccccttcctccttaaatcattcctcttcattcaacctcttgttttcctgggttagattgtagttttatttttcct-tgtttggtctgacctttgacag
|| |||||||| || |||||| ||||  |||||||||||||||||||||| || ||||| ||||   | ||||  ||| ||  || ||||||  || | | |||    | ||||           ||   |||| |   || || |||| ||||  || |||||| |              
GTGAATCCACATACCCACCAGCTTAAGCTATGTGACTTTGGAAGTGCAAAAGTCTTGgtgcgtt---tttgttt-catctcctcctcttcctggttta-ttattgtcttgcatt-----------ttggttgggatgtgttttaattttgttttatctgtgtttgatag------------
















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|6566240|gb|AW233921.1|AW233921
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|12773850|gb|BG238777.1|BG238777
EST:     CACACACTCACCAGGATAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|193629894|gb|FK575020.1|FK575020
EST:     TATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: TATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|19052551|gb|BM731218.1|BM731218
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|15287684|gb|BI471575.1|BI471575
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|209699787|gb|BW655800.1|BW655800
EST:     ACACACTCACCAGGTTAAATTATGTGACTTTGGAAAGTGCAA-GGTTTTG                         GTAAAAGGCGA-CCAAATATATCATACATATGTTCTAGATACTATAGAGC
genomic: ACACACTCACCAGGTTAAATTATGTGACTTTGGAA-GTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGC
EST: gi|14990268|gb|BI315941.1|BI315941
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|27426708|gb|CA938228.1|CA938228
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGTGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|11413300|gb|BF425311.1|BF425311
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|192296530|gb|FG991636.1|FG991636
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|16997007|gb|BM086379.1|BM086379
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|208183454|gb|GD981508.1|GD981508
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|15000029|gb|BI320843.1|BI320843
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|192321549|gb|FK012899.1|FK012899
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|193377439|gb|FK339255.1|FK339255
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAAC
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAAC
EST: gi|14990090|gb|BI315763.1|BI315763
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|120492579|gb|EH220746.1|EH220746
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|9205156|gb|BE331380.1|BE331380
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|22525150|gb|BU083970.1|BU083970
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGTGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
EST: gi|13481244|gb|BG510587.1|BG510587
EST:     CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTG                         GTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA
genomic: CACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttata ... cctttgacagGTAAAAGGCGAACCAAATATATCATACATATGTTCTAGATACTATAGAGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCAATCCACACACTCACCAGGTTAAATTATGTGACTTTGGAAGTGCAAAGGTTTTGgtacgttatatatgttggcatttctgccccttcctccttaaatcattcctcttcattcaacctcttgttttcctgggttagattgtagttttatttttccttgtttggtctgacctttgacag

- - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - -  GCAAAG