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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtagatgatatcgttatttgatccatttcagtatttggttttctttgcttcaatttaaatgtgtctctattgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACGAACCACATTTTGATTACTTCCATGACAAAGCTAATCAAGTTATGGGTGG

Basic information

species Glycine max
transcript GLYMA13G04940.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G04940.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os10g27340.2 (Oryza sativa), 3'ss of exon 4
-------------gttagtagatgatatcgttatttgatccatttcagtatttggttttctttgcttcaatttaaatgtgtctctattgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACGAACCACATTTTGATTACTTCCATGACAAAGCTAATCAAGTTATGGGTGG
              | |  |    |  |    ||||  || |  ||| | ||||   |  ||      | | | | | | |  |   ||  | ||| ||||| || || || |||||||| || ||| |||||||  ||||||| || ||||| | |||||||||||||||||||  |||||||| | | || ||
gtatccgaaatgcctaaccattctaggttaaaatttc-tctacctcattttttgtaatcattaatggtattatcattatcttgcccatgt-ttagATAATGGCGAATCCATTCAAATATTACATTATCAGAATGGCGAGAAGTATGAGCCACACTATGATTACTTCCATGACAAAAATAATCAAGCTCTTGGAGG

upper sequence: GLYMA13G04940.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G28480.1 (Arabidopsis thaliana), 3'ss of exon 5
------------gttagtagat-gatatcgttatttgatccattt---cagtatttggttttctttg---cttcaatttaaatgtgtctctattgc--atcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACGAACCACATTTTGATTACTTCCATGACAAAGCTAATCAAGTTATGGGTGG
             |  ||| || ||| || | |||   ||  |||    ||  ||| |||   |        |||  |    | ||||| | ||||  ||||||||||||||| || |||||||||||||| |||||||||||||| ||||| ||||| |||||||| ||||| || ||| | ||||||| ||   | |||||
gtatttttggccatatgtacatagatttcctaattctgtctctttgtttagactttagttgcttacaacttctcatctcttttttgtctgtgttgcggatcagAGAATGGTGAATCCATGCAAATATTGCATTATGAGAATGGTCAAAAGTATGAACCGCATTTTGACTACTTTCACGACCAGGCTAATCTAGAGCTCGGTGG

upper sequence: GLYMA13G04940.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 5
---------gttagtagatgatatcg--ttatttgatccatttcag-tatttggttttct-ttgcttcaatttaaatgtgtctctattgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACGAACCACATTTTGATTACTTCCATGACAAAGCTAATCAAGTTATGGGTGG
          ||  |   |   || |  || ||  |  |||    | |||      |  | || ||||  |||  |  |   |||  |  |||||| ||||| ||||| || |||||| ||||||||||||||||| | ||||| || || ||||||||||| || |||||||| | ||||||| |  | |||||
gtaagctcctttgatttctataattgatttgttaaaatcataaaggatataaaacatcttattccttcttttttgaacttgatcttcta-atcagAAAATGGCGAGTCCATTCAAATACTGCACTATGAGAATGGTGAAAAGTATGAGCCGCATTTTGATTATTTTCATGACAAGGTTAATCAACTACTTGGTGG

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|298189073|gb|HO037476.1|HO037476
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|192303526|gb|FG995932.1|FG995932
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|298175821|gb|HO018418.1|HO018418
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|192298241|gb|FG991717.1|FG991717
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|151411869|gb|EV281680.1|EV281680
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAG
EST: gi|120491083|gb|EH219250.1|EH219250
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCA-AAGT
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGT
EST: gi|192298016|gb|FG993250.1|FG993250
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCGTGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|151394021|gb|EV263892.1|EV263892
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|254330721|gb|GR841986.1|GR841986
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|23062388|gb|BU578509.1|BU578509
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|151407677|gb|EV277492.1|EV277492
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|192330838|gb|FK021611.1|FK021611
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|151395404|gb|EV265281.1|EV265281
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|120530553|gb|EH258686.1|EH258686
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
EST: gi|213611820|gb|DB958886.1|DB958886
EST:     AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAG                         AGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG
genomic: AGTTGCTGGTATTGAAGCCAGAATTGCTGCATGGACATTCCTTCCTATAGgttagtagat ... attgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catttcagtatttggttttctttgcttcaatttaaatgtgtctctattgcatcagAGAATGGTGAGTCGATGCAAATATTGCACTATGAGAATGGTCAGAAGTACGAACCACATTTTGATTACTTCCATGACAAAGCTAATCAAGTTATGGGTGG
                                        tctctatt  CT-rich tract
                         ttcaatttaaatgt  TA-rich tract