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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgaggaactatcactatttctttattgcttattttgattccatattctagtttttttttccttttatccaaagtcagtacaaaatgaaaattaagattaatataatataaattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAATCTTCAATGACTGTTACAGATGGTTGGTATCATTTTTTCTAAGTAGACCA

Basic information

species Glycine max
transcript GLYMA01G38410.3
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G38410.4 (Glycine max), 3'ss of exon 13
lower sequence: Vv04s0023g01300.t01 (Vitis vinifera), 3'ss of exon 13
gttttgaggaactatcactatttctttattgcttattttgattccatattctagtttttttttccttttatccaaagtcagtacaaaatgaaaattaagattaatataatataaattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAATCTTCAATGACTGTTACAGATGGTTGGTATCATTTTTTCTAAGTAGACCA
                  ||     | | ||     ||   ||||   |  || ||| | | | |||| || | ||   | ||       |   ||    ||| |  | |||  |||| |||||||| || ||||| ||||||||| | |  |||||  |||| ||||| ||| ||||||||||||| |||||||                            
-----------------gtaagcgatgaatgaagggttc--ttcctcttgttattttatatgttctttgatgcgaa-ctaatat------acctttttttttattgcactat--attgagcagGACCCCATTTAATTAGTTTCAGAACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATG----------------------------
















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|11274775|gb|BF325110.1|BF325110
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAAATGT-CCATTGGCA
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAA-TGTACCATTG-CA
EST: gi|193345566|gb|FK313705.1|FK313705
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|208055785|gb|GD851588.1|GD851588
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|13480236|gb|BG509579.1|BG509579
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|193380761|gb|FK346044.1|FK346044
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAG
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAG
EST: gi|298167280|gb|HO010719.1|HO010719
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|207798702|gb|GD769115.1|GD769115
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|193334513|gb|FK298863.1|FK298863
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTGCCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|193357067|gb|FK319647.1|FK319647
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|208213003|gb|GE012314.1|GE012314
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCA
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCA
EST: gi|23057556|gb|BU578230.1|BU578230
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAA
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAA
EST: gi|193723997|gb|FK656347.1|FK656347
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|208172250|gb|GD966655.1|GD966655
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCA
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCA
EST: gi|207748553|gb|GD720376.1|GD720376
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|193407771|gb|FK373119.1|FK373119
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|193717194|gb|FK649922.1|FK649922
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTG
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTG
EST: gi|193480154|gb|FK447288.1|FK447288
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCA
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCA
EST: gi|193401211|gb|FK370154.1|FK370154
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCA
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCA
EST: gi|193404559|gb|FK368212.1|FK368212
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|193342663|gb|FK306489.1|FK306489
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAG
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAG
EST: gi|13482091|gb|BG511434.1|BG511434
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCATGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|193340054|gb|FK305393.1|FK305393
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCCCGAAATGTACCATTGCAAC
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|193601591|gb|FK553486.1|FK553486
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|193339700|gb|FK302303.1|FK302303
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|193310177|gb|FK273639.1|FK273639
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|208257117|gb|GE052318.1|GE052318
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTT
EST: gi|193724486|gb|FK662674.1|FK662674
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|207734591|gb|GD713340.1|GD713340
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
EST: gi|193609071|gb|FK561655.1|FK561655
EST:     TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAG                         GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT
genomic: TCGACATGGTACTGGTCATGGAATTGGGTCCTATCTGAATGTTCATGAAGgttttgagga ... aattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatccaaagtcagtacaaaatgaaaattaagattaatataatataaattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAATCTTCAATGACTGTTACAGATGGTTGGTATCATTTTTTCTAAGTAGACCA
                              gattaat  putative branch site (score: 3)
           agtacaaaatgaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttgaggaactatcactatttctttattgcttattttgattccatattctagtttttttttccttttatccaaagtcagtacaaaatgaaaattaagattaatataatataaattgtgcagGACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAATCTTCAATGACTGTTACAGATGGTTGGTATCATTTTTTCTAAGTAGACCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG