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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttaagtttttttttcctcctatatatccagctgaaattgtgtatttaatgatattatgatactattgttgacatcactatgttgatgtgttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT

Basic information

species Glycine max
transcript GLYMA07G29630.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G29630.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os03g42110.1 (Oryza sativa), 3'ss of exon 13
gtatgttaagtttttttttcctcctatatatccagctgaaattgtgtatttaatgatattatgatactattgttgacatcactatgttgatgtgttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT
    || |   | |||  ||  | | | | || |||   | ||    || |||||  ||     |   ||   | |    | |   |   |       ||||||| |||||||| ||||||||||| |||||||| ||| | || ||||||||| || | |||||  | ||||| ||    || || || || |  || || |
----gtaagtgtctttcatctacatgtttctcaagc---atttagcaatctaatgtcatagacttcagatgcataatcctatttcttgttttcaacaatgcagATAGATAATCTTGTGAAGGGAGCATCAGGTCAGGCTGTTCAGAACCTTAATCTGATGATGGGTCTGCCAGAGAACACTGGGCTGCAATATCAACCCCTAT

upper sequence: GLYMA07G29630.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G038848_T02 (Zea mays), 3'ss of exon 13
----gtatgttaagtt--tttttttcctcctatatatccagctgaaattgtgtatttaatgatattatgatactattgttgacatcactatgt-tgatgtgttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT
    ||   || |||    ||| | || | ||  ||| || |  ||||  | |     |    |||| ||| |     | ||| | || |  | || |      |||||||| |||||||| ||||||||||| || ||||| ||||| ||||| |||||| || | |||||| | || || ||| |||| || || |||| ||| || |
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatc----acataattaagatgca--catagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT

upper sequence: GLYMA07G29630.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G477770_T01 (Zea mays), 3'ss of exon 2
----gtatgttaagtt--tttttttcctcctatatatccagctgaaattgtgtatttaatgatattatgatactattgttgacatcactatgt-tgatgtgttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT
    ||   || |||    ||| | || | ||  ||| || |  ||||  | |     |     ||| ||| |     | ||| | || |  | || |      |||||||| |||||||| ||||||||||| || ||||| ||||| ||||| |||||| || | |||||| | || || ||| |||| || || |||| ||| || |
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacatac----ttaagatgca--catagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTACAATACCAGCCCCTGT

upper sequence: GLYMA07G29630.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G378931_T01 (Zea mays), 3'ss of exon 2
----gtatgttaagtt--tttttttcctcctatatatccagctgaaattgtgtatttaatgatattatgatactattgttgacatcactatgt-tgatgtgttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT
    ||   || |||    ||| | || | ||  ||| || |  ||||  | |     |     ||| ||| |     | ||| | || |  | || |      |||||||| |||||||| ||||||||||| || ||||| ||||| ||||| |||||| || | |||||| | || || ||| |||| || || |||| ||| || |
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacatac----ttaagatgca--catagaccttacaagctatgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT

upper sequence: GLYMA07G29630.1 (Glycine max), 3'ss of exon 13
lower sequence: AT2G19940.2 (Arabidopsis thaliana), 3'ss of exon 12
gtatgttaagtttttttttcctcctatatatccagctgaaattgtgtatttaatgatattatgatactattgttgacatcactatgttgatgtgttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT
|||  |||||  |     |||||   ||||   | || |  ||  |  ||  |  |||||         ||||  | |  |   | |     || ||||||||||||||||||| ||||| |||||||| || ||||| || || || |||||  |  |  |||||| ||| ||||    ||| || |   ||| ||| ||||
gta-attaagcataaccatcctctgttata---aactcatctttagctttcgacaatattgc------tttgtgtataaaaagctctc----tggtgttgcagATTGATAATCTTGTGAAAGGAGCTTCGGGACAAGCGTTGCAGAATCTTAACATAATGTTGGGATATCCCGAAACAACGGGGCTCCTACACCAGCCGCTTT

upper sequence: GLYMA07G29630.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv03s0063g01110.t01 (Vitis vinifera), 3'ss of exon 12
gtatgttaagtttttttttcctcctatat----atccagctgaaattgt-gtatttaatgatatta-tgatactattgttgacatc-actatgttgatgtgttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT
||||||| |  |||  |||  || | | |    || |      | || | ||||  || | ||||| | || ||| | |      | |   | |  |    ||| |||||||||||||||| |||||||||||||| |||||||| || || || |||||| || | |||||||| || || |||   |||||||  |||| |||  | |
gtatgtttaaatttcctttgttcatgttttagaattccttcatatttctagtatgaaaggttattaataatcctactatcactggctaaggtctcaaatccttgctgcagATTGATAATCTTGTGAAGGGAGCTTCTGGTCAAGCCTTGCAGAATCTTAATGTGATGATGGGATTGCCGGAGAATACAGGACTTCTCTACCAGCCATTGT

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|21600469|gb|BQ610800.1|BQ610800
EST:     TCAATGTTTTTCCAGACCGAATTCCTGGAAGAGCAATCATTATATCTGTT                         ATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACTATATCTTAAT
genomic: TCAATGTTTTTCCAGACCGAATTCCTGGAAGAGCAATCATTATATCTGTTgtatgttaag ... gttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAAT
EST: gi|57575030|gb|CX548005.1|CX548005
EST:     TCAATGTTTTTCCAGACCGAATTCCTGGAAGAGCAATCATTATATCTGTT                         ATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAAT
genomic: TCAATGTTTTTCCAGACCGAATTCCTGGAAGAGCAATCATTATATCTGTTgtatgttaag ... gttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAAT
EST: gi|207685775|gb|GD669107.1|GD669107
EST:     TCAATGCTTTT-CAGACCGAATTCCTGGAAGAGCAATCATTATATCTGTT                         ATTGATAATCTAGTGAAGGGGGCTTCAGGTCAAGCTTTACAAAACCTTAAT
genomic: TCAATGTTTTTCCAGACCGAATTCCTGGAAGAGCAATCATTATATCTGTTgtatgttaag ... gttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAAT
EST: gi|58016973|gb|CX703715.1|CX703715
EST:     TCAATGTTTTTCCAGACCGAATTCCTGGAAGAGCAATCATTATATCTGTT                         ATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAAT
genomic: TCAATGTTTTTCCAGACCGAATTCCTGGAAGAGCAATCATTATATCTGTTgtatgttaag ... gttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAAT
EST: gi|207717074|gb|GD699584.1|GD699584
EST:     TGGAAGAGCAATCATTATATCTGTT                         ATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAAT
genomic: TGGAAGAGCAATCATTATATCTGTTgtatgttaag ... gttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaatgatattatgatactattgttgacatcactatgttgatgtgttgttgcagATTGATAATCTAGTGAAGGGAGCTTCAGGTCAAGCTTTACAAAACCTTAATTTGTTAATGGGATTTCCAGAAAATTTGGGACTTCATTACCTGCCTCTTT
       atattatgatactatt  TA-rich tract