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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagagcatgctatgtaattcattaattctactttgtttggatacacactctgtttcttatcaacaaaatccttcaagtctcatctcatcttgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGGTTAGATTCCCATGTTTGGATGAGCAATGAA

Basic information

species Glycine max
transcript GLYMA08G20830.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 9
--cagagcatgctatgtaattcattaattctact-ttgtttggatacacactctgtttct-tatcaacaaaatccttcaagtctcatctcatcttgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGGTTAGATTCCCATGTTTGGATGAGCAATGAA
        || |||| |  |  |   ||     | || |||   | ||     |  |||  | |        || |  || | |  ||    ||| | || ||| | ||||| || || ||| | ||||||||||||||||| |||||||||||||||||||||||||| |||                               
ggtgatttatactattttctgtagccatagaggtgttatttttctgcagctgttacttcgatgtttttgtgttcatataaattttttc----cttttgttccagCTTTGGGATATTAACATGAACTCTGGTCCAGTTGCAACATTCCAGGTTCATGAGTATTTAAGGCCCAAG-------------------------------

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 9
cagagcatgctatgtaattca-ttaattctactttgtttggatacacactctgtttcttatcaacaaaatccttcaagtctcatctcatcttgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGGTTAGATTCCCATGTTTGGATGAGCAATGAA
 | |   |  ||| |  | ||  | |||||| |          | | |    || |  |      ||  || ||      |     | | |  || ||||||||||||| || || |||||||| || ||||||||||| ||||| |||||||| |||||||| || |||                               
-aaacttttatatattctgcagctgattctaatactacgtatcatataagtggtatactgcttgaaatgtcattagtccgttgctccttttctttcttcagTTATGGGATATAAACATGGATTCAGGCCCAGTTGCAACTTTCCAAGTTCATGAATATTTAAGACCTAAG-------------------------------

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os06g36770.2 (Oryza sativa), 3'ss of exon 9
cagagcatgctatgtaattcattaattctactttgtttggatacacactctgtttcttatc-aacaaaatccttcaagtctcatctcatcttgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGGTTAGATTCCCATGTTTGGATGAGCAATGAA
    |||||   | | ||      |||  ||||  |    |   | | | |   |       || ||  |  ||  ||| | || ||    | ||  |||| |||||||  | || |||||||| ||||| ||| |||| ||||||||||||||  |||||||||| |||                               
-tttgcatggcttatgatgagcatatttgacttgttaataaggtaaattttaggtaaagcggaataatttggtttgagtttaatatctgtcttttcctcagCTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG-------------------------------

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 9
cagagcatgctat-gtaattcattaattctactttgtttggatacacactctgtttcttatcaacaaaatccttcaagtctcatctcatcttgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGGTTAGATTCCCATGTTTGGATGAGCAATGAA
|| |  || |||| |  ||   |       |   |      |    ||||  | ||  | |||      |  | |   |   ||    |||  | || ||| | |||||  | || ||| |||||||||| |||||||| |||||||||||||||||| ||||||| |||                               
cacattatactatcgctatctttctccagaaacataaacatactatcactaagatttgtttca-tgtgtttttgctcatactatactgtctattattacagCTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCATGAGTATCTAAGGCCTAAG-------------------------------

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 9
cagagcatgctatgtaattcattaattctactttgtttggatacacactctgtttcttatcaacaaaatccttcaagtctc---atctcatcttgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGGTTAGATTCCCATGTTTGGATGAGCAATGAA
   | |    | |   |||   |  | |    |       ||   |||| |     || |  |     | ||||   |  |   |  |  |||  | || ||| | |||||  | || ||| |||| |||||||||||||| |||||||||||||||||| ||||||| |||                               
---accgcattttactattatcttctacagaatcaaacaaattatcactgtaaaatttgtttatgtgtttcttcccatacctatactttgtctactattacagCTTTGGGATGTTAAGATGAATTCCGGTCCAGTTGCAACATTCCAGGTTCATGAGTATCTAAGGCCTAAG-------------------------------

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 9
lower sequence: AT1G51690.2 (Arabidopsis thaliana), 3'ss of exon 9
------------------cagagcatgctatgtaattcattaattctactttgtttggatacacactctgtttcttatcaacaaaatccttcaagtctcatctcatcttgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGGTTAGATTCCCATGTTTGGATGAGCAATGAA
                     | ||| | || | ||  ||    || |  || |  |         ||  ||| ||      |       | |   |   |    | ||   |  ||||||||||||||||| |||||  | |||||||| ||||| |||||||||||||| ||||| |  ||||||                               
gtccatattttcactgttttcatcattcaatatgat--atcccctcgaagttatcagtggctggtttcgatttgttcgtgtaaggtaaactgaccccatgttatgttttacatgccagTTATGGGACATCAACATGGACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAG-------------------------------

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 9
----cagagcatgctatgtaattcattaattctactttgtttggatacacactctgtttcttatcaacaaaatccttcaagtctcatctcatcttgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGGTTAGATTCCCATGTTTGGATGAGCAATGAA
    |   ||||   | | |||| ||   | ||| ||   ||     |  |   |    | | | ||| ||   ||  ||   |  | | | |||| |||||||||||||||||| |||||||| || || |||||| |||| |||||||||||||| |||||||| || |||                               
aggtctttgcatcacaaggaattgatatgtactatttgtctttctggcttaagttagggcct-tgaactaatcactggaa--tttgtttta-cttgcttttcagTTATGGGACATTAATATGGACTCAGGCCCAGTTTCAACCTTCCAGGTTCATGAATATTTAAGACCTAAG-------------------------------

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|207767896|gb|GD740308.1|GD740308
EST:     TTGGGAAGGATGGAAGATATATACTTAGTCGTGATTACATGACCTTAAAG                         TTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCAT
genomic: TTGGGAAGGATGGAAGATATATACTTAGTCGTGATTACATGACCTTAAAGgttttagagc ... tgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCAT
EST: gi|193337986|gb|FK302493.1|FK302493
EST:     TTGGGAAGGATGGAAGATATATACTTAGTCGTGATTACATGACCTTAAAG                         TTATGGGACATCAATATGGATTCTGGTCCAGT-GCAACGTTCCAGGTTCAT
genomic: TTGGGAAGGATGGAAGATATATACTTAGTCGTGATTACATGACCTTAAAGgttttagagc ... tgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCAT
EST: gi|208333147|gb|GE128194.1|GE128194
EST:     TTGGGAAGGATGGAAGATATATACTTAGTCGTGATTACATGACCTTAAAG                         TTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCAT
genomic: TTGGGAAGGATGGAAGATATATACTTAGTCGTGATTACATGACCTTAAAGgttttagagc ... tgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCAT
EST: gi|208073582|gb|GD869431.1|GD869431
EST:     TTGGGAAGGATGGAAGATATATACTTAGTCGTGATTACATGACCTTAAAG                         TTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCAT
genomic: TTGGGAAGGATGGAAGATATATACTTAGTCGTGATTACATGACCTTAAAGgttttagagc ... tgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactctgtttcttatcaacaaaatccttcaagtctcatctcatcttgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGGTTAGATTCCCATGTTTGGATGAGCAATGAA
                                tctcatctcatcttgt  CT-rich tract
       tttcttat  TA-rich tract