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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttgacagtttcatactttattttatagtatacagttaatttttttttaaaatatatctttttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCATGCTGCAGGCTGCAGCTGAGCG

Basic information

species Glycine max
transcript GLYMA03G24630.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G24630.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G406672_T01 (Zea mays), 3'ss of exon 15
gttagttgacagtt-tcatactttattttatagtatacagtt--------aatttttttttaaaatatatctt-tttgttc--cagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCATGCTGCAGGCTGCAGCTGAGCG
||||| | |   |  | | ||  |||   || |  |   |||        |  | |  ||| |  | |  ||| |||| |   ||| || || || ||||| ||||| || || ||| || |  |||||||||| |||||||||||||||||||| ||
gttagataattttcattacacactatgcaatcgggttttgtttttatgacagctatggtttcatttttggcttctttgctgtgcagAATAGGGCTTGGAACCCTTCTGTCTGGTGCTCGGGTTATCTCTGATGGAATGCTGCAGGCTGCAGCTGAACG
















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|208206859|gb|GE002552.1|GE002552
EST:     GGGAAACAACANG-ACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|8284122|gb|BE021681.1|BE021681
EST:     TCATATTGGCCATTTGCA-CCAGGGAAAACA-CATGTACCTCTTTTCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCCTCTCTTATGGCAT
genomic: TCATATTGGCCATT-GCAACCAGGGAAA-CAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193663498|gb|FK604118.1|FK604118
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193708846|gb|FK644580.1|FK644580
EST:     GGGAAGCAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193414412|gb|FK377426.1|FK377426
EST:     GAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193573139|gb|FK531444.1|FK531444
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|58018827|gb|CX705569.1|CX705569
EST:     GGTCATATTGGCCATTGCAACCAGGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGTCATATTGGCCATTGCAACCAGGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193342785|gb|FK309061.1|FK309061
EST:     GGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193365950|gb|FK333311.1|FK333311
EST:     GAAACAACATGTACCTCTTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCA
genomic: GAAACAACATGTACCTC-TTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCA
EST: gi|193658508|gb|FK604173.1|FK604173
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTCCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|208251420|gb|GE049703.1|GE049703
EST:     GCAACCAGGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GCAACCAGGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|58015662|gb|CX702404.1|CX702404
EST:     GGTCATATTGGCCATTGCAACCAGGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGTCATATTGGCCATTGCAACCAGGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193667463|gb|FK613537.1|FK613537
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193686524|gb|FK626883.1|FK626883
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193396567|gb|FK363707.1|FK363707
EST:     AAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: AAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|208302057|gb|GE100813.1|GE100813
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|207810142|gb|GD780916.1|GD780916
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|208310674|gb|GE106020.1|GE106020
EST:     GAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|208097053|gb|GD896778.1|GD896778
EST:     GGGAAACAACATTGTACCNCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACA-TGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193549837|gb|FK507532.1|FK507532
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|13240420|gb|BG359729.1|BG359729
EST:     GGTCATATTGGCCATTGCAACCAGGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGTCATATTGGCCATTGCAACCAGGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193527978|gb|FK483480.1|FK483480
EST:     GAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|207820411|gb|GD792865.1|GD792865
EST:     GGGAAACAACATTGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACA-TGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|207830299|gb|GD803279.1|GD803279
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|208318983|gb|GE112024.1|GE112024
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTTTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|17401415|gb|BM178197.1|BM178197
EST:     GGTCATATTGGCCATTGCAACCAGGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGTCATATTGGCCATTGCAACCAGGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193389779|gb|FK355868.1|FK355868
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|208119623|gb|GD917430.1|GD917430
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193675913|gb|FK617799.1|FK617799
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|207796824|gb|GD768886.1|GD768886
EST:     GAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|207781083|gb|GD754768.1|GD754768
EST:     TGTACCNCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: TGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193542011|gb|FK496165.1|FK496165
EST:     GGGAAACAACATGTTACCTTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATG-TACC-TCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|207819146|gb|GD789850.1|GD789850
EST:     GGGAAACAACANGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|207740259|gb|GD714197.1|GD714197
EST:     GAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCT
genomic: GAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCT
EST: gi|193573223|gb|FK531486.1|FK531486
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|208121146|gb|GD920297.1|GD920297
EST:     GAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|208263275|gb|GE064795.1|GE064795
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193315482|gb|FK279308.1|FK279308
EST:     GAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|192325221|gb|FK017562.1|FK017562
EST:     GGTCATATTGGCCATTGCAACCAGGGAAACAACATGTACCTCTTTCCAGG                         CATTTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCA
genomic: GGTCATATTGGCCATTGCAACCAGGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCA-TTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCA
EST: gi|207819242|gb|GD789946.1|GD789946
EST:     GGGAAACAACACGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
EST: gi|193468938|gb|FK431490.1|FK431490
EST:     GGGAAACAACATGTACCTCTTTCCAGG                         CATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT
genomic: GGGAAACAACATGTACCTCTTTCCAGGgttagttgac ... tttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttattttatagtatacagttaatttttttttaaaatatatctttttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCATGCTGCAGGCTGCAGCTGAGCG
                  agttaat  putative branch site (score: 4)
                                       tatctttttgttcc  putative PPT
     ttttatagtatacagt  TA-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagttgacagtttcatactttattttatagtatacagttaatttttttttaaaatatatctttttgttccagCATTGGTCTCGGAACTCTTCTTTCAGGCGCTAGGATCGTCTCTGATGGCATGCTGCAGGCTGCAGCTGAGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA