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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcatgagagaagattttattttgtaccagttttctgtattgttttatggaatatttggatttttcagctagttgttagacaaccttttttttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATACATCAAGCGTGGAATAGAAGCTGATGGTATTGAGGCACTGTACAAGAAGG

Basic information

species Glycine max
transcript GLYMA16G03170.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g67134.1 (Oryza sativa), 3'ss of exon 7
------------------------------------------------------------------------------------------gcatgagagaagattttat---tttgtaccagttttctgtattgttttatggaatat-ttggatttttcagctagttgttagacaaccttttttt-------tcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATACATCAAGCGTGGAATAGAAGCTGATGGTATTGAGGCACTGTACAAGAAGG
                                                                                            ||     || |  ||||      |    |   ||   || |||||     | | |  | |||||||   ||  |   |  | ||  | |  ||       || |||||    ||||||| || |||||||||||||  ||  | ||||||||||| ||| |||||   ||||| || |||||||| || || ||||||||||||||||
gtgagctggcactattagatcaattgttcgtgctattttgacattgctgtgtgttgtattaggagttatgtagctgccttgatgcttgtaatattgactaaaacattataagcaggctggaaaatttgttactgtttagctcagtctgcttgatttttattctcatcagtttaaaatttctacttatgtacttcttgcagTCTATGGCGGAGGAGGAACCTGAGAAATTCCAAGCCCACTTCAGTGAGTACCTCAAGAAGGGAATTGATGCTGATGGCATGGAAGCACTGTACAAGAAGG
















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|207798004|gb|GD768540.1|GD768540
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|192308476|gb|FK001378.1|FK001378
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|207733352|gb|GD710532.1|GD710532
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|192315894|gb|FK008595.1|FK008595
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTT
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTT
EST: gi|6848438|gb|AW350728.1|AW350728
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|8404068|gb|BE059702.1|BE059702
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|193663738|gb|FK612408.1|FK612408
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|207738377|gb|GD716127.1|GD716127
EST:     AGGTTCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAA
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAA
EST: gi|13562959|gb|BG551179.1|BG551179
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|193719633|gb|FK652243.1|FK652243
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAA
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAA
EST: gi|192308475|gb|FK001377.1|FK001377
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGA-GATGAACCTGAGAAATATCAGTCACACTTCAGTGAAT
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAAT
EST: gi|6846732|gb|AW349022.1|AW349022
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|4300820|gb|AI443102.1|AI443102
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|208280059|gb|GE076365.1|GE076365
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGA
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGA
EST: gi|31461703|gb|CD403731.1|CD403731
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|208294257|gb|GE092998.1|GE092998
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGA
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGA
EST: gi|15812479|gb|BI784754.1|BI784754
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|207761818|gb|GD732467.1|GD732467
EST:     TCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: TCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|208254139|gb|GE051609.1|GE051609
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGA
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGA
EST: gi|193315460|gb|FK278502.1|FK278502
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGT
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGT
EST: gi|13790762|gb|BG653353.1|BG653353
EST:     GTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: GTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|151393465|gb|EV263340.1|EV263340
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCAC
EST: gi|207788348|gb|GD760592.1|GD760592
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|193425363|gb|FK387838.1|FK387838
EST:     GGTGCAATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         NTCTTGGCGGAAG
genomic: GGTGCA-TCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAG
EST: gi|192315893|gb|FK008594.1|FK008594
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|7590637|gb|AW706385.1|AW706385
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|151412354|gb|EV282166.1|EV282166
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|42722855|gb|CK768754.1|CK768754
EST:     AGTGCATCGCAAATATGTTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTT
genomic: GGTGCATCGCAAATATGTTTTT-GGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTT
EST: gi|192317628|gb|FK007582.1|FK007582
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
EST: gi|209701099|gb|BW664201.1|BW664201
EST:     AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAG                         ATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC
genomic: AGGTGCATCGCAAATATGTTTTTGGTGGACATGTTGCTGCCTATATGAAGgcatgagaga ... tttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatggaatatttggatttttcagctagttgttagacaaccttttttttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATACATCAAGCGTGGAATAGAAGCTGATGGTATTGAGGCACTGTACAAGAAGG
                                      ccttttttttcctgc  CT-rich tract
     aatatttggattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcatgagagaagattttattttgtaccagttttctgtattgttttatggaatatttggatttttcagctagttgttagacaaccttttttttcctgcagATCTTGGCGGAAGATGAACCTGAGAAATATCAGTCACACTTCAGTGAATACATCAAGCGTGGAATAGAAGCTGATGGTATTGAGGCACTGTACAAGAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG