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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaattgtagtgctacactagatacttattttgacatgtaaagtgggtcttattctgttgatctgttgccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAAATTTCAGAAGTTACATGAGGACCTGACTAATGGTTTCCGCAACCTTGAG

Basic information

species Glycine max
transcript GLYMA08G23990.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 3'ss of exon 19
------------------gtgagtaattgtagtgctacactagatacttattttgac-atgtaaagtgggtcttattctgttgatctgttgccatt--gcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAAATTTCAGAAGTTACATGAGGACCTGACTAATGGTTTCCGCAACCTTGAG
                  |   | || |   |||  ||| | |  |   |  |      | |  | ||  |  || || |   || | ||  | |    ||| |||||||||||||| |||||||||||||| || |  ||| |||| || || ||    ||  || |||| || || || |  || |||| ||||||||||
caattgggttagacttagggttgcaacttgggtg--acattgggcatgaacctcctttgtatttattgtatgataatccgaacatttttttacttccaacagATCTCAGAAATTTGAAGATCCAGCAGAAGGCGAGGAAGCTCTGGTAGCAAAGTTCACCAAACTAAATGAAGATCTCACCATGGGCTTCCACAACCTTGAG

upper sequence: GLYMA08G23990.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 19
gtgagt--aattgtagtgcta-------cactagat--acttattttgacatgt----aaagtgggtcttattctgttgatctgttgccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAAATTTCAGAAGTTACATGAGGACCTGACTAATGGTTTCCGCAACCTTGAG
|| |||  |||||   || ||       ||  ||||  |||   | ||| || |     |||   |||||| || | | || | |   || | ||||||||||||||| ||||| ||||||||||| ||||  | | | || || |||||    ||| |||||||||| ||||||  |||||||||||||||||| 
gtaagtgaaattgccatgttaacaaagacaaaagatgaactgcatgtgagattttaaggaagcatgtcttaatcagctcatatatctacactacagGTCTCAGAAATTCGAGGACCCAGCAGAAGGAGAAGAAGTTCTTGTGGCTAAATTCAGCAAGCTACATGAGGATCTGACTGCTGGTTTCCGCAACCTTGAC
















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|298182032|gb|HO026207.1|HO026207
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|192305531|gb|FG998315.1|FG998315
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|254334141|gb|GR849059.1|GR849059
EST:     CCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: CCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|57575332|gb|CX548307.1|CX548307
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|7639458|gb|AW733780.1|AW733780
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCTAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|13787440|gb|BG650032.1|BG650032
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|58024853|gb|CX711594.1|CX711594
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|207824887|gb|GD794695.1|GD794695
EST:     CTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: CTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|151395287|gb|EV265158.1|EV265158
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|192324960|gb|FK015411.1|FK015411
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGC
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGC
EST: gi|9203454|gb|BE329607.1|BE329607
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|7638913|gb|AW733179.1|AW733179
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|21676820|gb|BQ629171.1|BQ629171
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGG
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGG
EST: gi|12691488|gb|BG157824.1|BG157824
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|7042485|gb|AW472379.1|AW472379
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|209722704|gb|BW657958.1|BW657958
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|58023444|gb|CX710185.1|CX710185
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|7234175|gb|AW569514.1|AW569514
EST:     TACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|9204331|gb|BE330563.1|BE330563
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|6724341|gb|AW308740.1|AW308740
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|31561919|gb|CD487757.1|CD487757
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|254333422|gb|GR841284.1|GR841284
EST:     CTTACACCCTTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: CTTACACCC-TTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|192309104|gb|FG999387.1|FG999387
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|9900935|gb|BE609903.1|BE609903
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCTAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|192309103|gb|FG999386.1|FG999386
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|11274141|gb|BF324509.1|BF324509
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|16349431|gb|BI975026.1|BI975026
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|298166861|gb|HO010300.1|HO010300
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
EST: gi|193417781|gb|FK383375.1|FK383375
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAANCTGCTTTGG
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGG
EST: gi|57575633|gb|CX548608.1|CX548608
EST:     TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGT                         GTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA
genomic: TCTTACACCCTTATCAAGCATCGTATGGGAGATCTGTTCTACCGATTAGTgtgagtaatt ... gccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttattttgacatgtaaagtgggtcttattctgttgatctgttgccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAAATTTCAGAAGTTACATGAGGACCTGACTAATGGTTTCCGCAACCTTGAG
     attttga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtaattgtagtgctacactagatacttattttgacatgtaaagtgggtcttattctgttgatctgttgccattgcagGTCTCAGAAATTTGAGGATCCAGCAGAAGGGGAAGCTGCTTTGGTTGCGAAATTTCAGAAGTTACATGAGGACCTGACTAATGGTTTCCGCAACCTTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT