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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtggatcatgtagtctagtcttttaacatatttaagtattcaatgttttacttgttagtcattgtcaggattggttgtgtgcttgaactttctgcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAG

Basic information

species Glycine max
transcript GLYMA12G14000.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G14000.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G23280.1 (Arabidopsis thaliana), 3'ss of exon 3
--gtactgtggatcatgtagtctagtcttttaacatatttaagtattcaat--gttttacttgttagtcattgtcaggattggttgtgtgcttgaactttct-gcat-tggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAG
  |  ||   |||    |     ||| | ||    || |    |  |  ||  |   |     |   | ||  || ||   |||| |     |   ||||||  | | |||||| |||| ||||||||  |  |    || ||| | || ||| |  |||| |||||||| |||||||| || |||||||||||||||||| |||| |||||
gtgagcttgagatttattgccacagtttatttctttactcttcttcttcattagcaatgtcaatgtcttatgatctgggagggttttaattattttctttcttacgtgtggcagTTGTACTGGCCCAAGTTGTTGCAGCATAAGGTTAAACAAAGACTGACTAAAATGACTCAGATGCGTATTCGTATGAGGAAACTTGCTCTGAAAACAAG
















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|193481770|gb|FK446889.1|FK446889
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|193697396|gb|FK641114.1|FK641114
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|151406980|gb|EV276795.1|EV276795
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|207824445|gb|GD793441.1|GD793441
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|193621397|gb|FK566839.1|FK566839
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|207747095|gb|GD720752.1|GD720752
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|193396002|gb|FK361421.1|FK361421
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|18041381|gb|BM309675.1|BM309675
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|207790009|gb|GD761300.1|GD761300
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|207712629|gb|GD694387.1|GD694387
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTT
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTT
EST: gi|208263533|gb|GE061133.1|GE061133
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAG
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAG
EST: gi|193567244|gb|FK524701.1|FK524701
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|207695636|gb|GD678587.1|GD678587
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|17518730|gb|BM187772.1|BM187772
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|208193955|gb|GD994238.1|GD994238
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTTATTGGCCCAAAC
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGT-ATTGGCCCAAAC
EST: gi|208292464|gb|GE091570.1|GE091570
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|207729934|gb|GD706486.1|GD706486
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|193666282|gb|FK610591.1|FK610591
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ACGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|298164306|gb|HO013951.1|HO013951
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|208192116|gb|GD992400.1|GD992400
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|207685783|gb|GD669115.1|GD669115
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|208238531|gb|GE036259.1|GE036259
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATACACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|193492027|gb|FK453443.1|FK453443
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTT
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTT
EST: gi|193670864|gb|FK613700.1|FK613700
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCCTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|193497351|gb|FK458259.1|FK458259
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|208156179|gb|GD952821.1|GD952821
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAA
EST: gi|193688847|gb|FK627838.1|FK627838
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|193310285|gb|FK273691.1|FK273691
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|193353439|gb|FK323645.1|FK323645
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCC-AAACTT
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTT
EST: gi|193355796|gb|FK323447.1|FK323447
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGCTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
EST: gi|193719717|gb|FK652271.1|FK652271
EST:     AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTG                         ATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA
genomic: AGCTTCCTAGGAATTACGAGAAGGCACTTGAAATCATAGATAAACATCTGgtactgtgga ... gcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttgttagtcattgtcaggattggttgtgtgcttgaactttctgcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAG
                                       ctttctgc  CT-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactgtggatcatgtagtctagtcttttaacatatttaagtattcaatgttttacttgttagtcattgtcaggattggttgtgtgcttgaactttctgcattggcagATGTATTGGCCCAAACTTCTTATACACAAGATAAAGCAACGTTTGACCAAAATGACACAGATGCGGATACGTATGAGGAAACTTGCTTTGAAGACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA