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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatcattgttggtgttgctgttactattattggctttattgctattgttgtagtttttgttttattaccaacaaaataagtccatgttaatatgttatagGGCTTGGTTCATGTTGCAAGGAAGATGCCCAAAAATGCTCACGCTCATTTTATACTCGGCTTGATGTACCAAAGATTAAGCCAACCTCAAAAG

Basic information

species Glycine max
transcript GLYMA04G36580.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G36580.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g67920.2 (Oryza sativa), 3'ss of exon 2
gatcattgttggtgttgc--tgttactattattggctttattgctattgttgtagtttttgttttattaccaacaaaataagtccatgttaatatgttatagGGCTTGGTTCATGTTGCAAGGAAGATGCCCAAAAATGCTCACGCTCATTTTATACTCGGCTTGATGTACCAAAGATTAAGCCAACCTCAAAAG
     || || |  || |  | |    |||| |      || || |||    |     | ||     |||  |     |||  ||   |     | ||  |||  ||||| ||||| ||| |||||||||| |||||||| || || ||||||||  | || ||||||||||||||  |  | || || || |||
-cctttttttagcattacattatcctaattaatatgcccatggcgatttgaatgcacatagtcagcatacgtatcgc-taaaaccggatcgtccttttgcagGCTTTGGTACATGTGGCACGGAAGATGCCTAAAAATGCCCATGCACATTTTATGTTGGGTTTGATGTACCAAAGGCTTGGTCAGCCACAGAAG

upper sequence: GLYMA04G36580.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G63200.1 (Arabidopsis thaliana), 3'ss of exon 2
gatcattgttggtgttgctgttactattattggct--ttattgctattgttgtagtttttgttttattaccaacaaaataagtccatgttaatatg-ttatagGGCTTGGTTCATGTTGCAAGGAAGATGCCCAAAAATGCTCACGCTCATTTTATACTCGGCTTGATGTACCAAAGATTAAGCCAACCTCAAAAG
  || |  |   | ||  |  | || ||    | |  |||||| | |  || |  |  |  |  |  |    | ||| |  |    |  |  | || |||||||| ||| |||||||||||||||||||||||||||||||||| || ||||||||||| ||  | ||||  ||| ||||  ||||| ||||||||
-gtcctctt--atattcataatgctcttcgcagttgattattggtctaattttcatgatgatgatgctctatataaattctgattttccttctctgcttatagGGTTTGATTCATGTTGCAAGGAAGATGCCCAAAAATGCTCATGCCCATTTTATACTTGGTCTTATGTTTCAACGATTGGGCCAATCTCAAAAG

upper sequence: GLYMA04G36580.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g09890.t01 (Vitis vinifera), 3'ss of exon 2
gatcattgttggtgttgctgttactattattggctttattgctattgt-tgtagtttttgttttattaccaacaaaataagtccatgttaatatgttatagGGCTTGGTTCATGTTGCAAGGAAGATGCCCAAAAATGCTCACGCTCATTTTATACTCGGCTTGATGTACCAAAGATTAAGCCAACCTCAAAAG
|     |     ||||  |   | |   |||    | |     ||    ||     ||  ||||||    |  |    |    |||  ||     || ||||| ||||| ||||| |||||||||||||||||||||||||| |||||||||||||| || || ||||| || || ||  | || || ||||||
ggaagctaa-aatgtttttaccaattggattaaggtcacatggatcacatgcctgcttcattttatgtatattatctaattggcatagtacatgcttgtagGGTTTGGTACATGTAGCAAGGAAGATGCCCAAAAATGCTCATGCTCATTTTATACTTGGATTAATGTATCAGAGGTTGGGTCAGCCACAAAAG

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|192322561|gb|FK014682.1|FK014682
EST:     TTCAAGGGCCTCCTTCATCTCGGGAGGAAAAAGTTAGCAGTGTGAAGACT                         GGCTTGGTTCATGTTGCAAGGAAGATGCCC
genomic: TTCAAGGGCCTCCTTCATCTCGGGAGGAAAAAGTTAGCAGTGTGAAGACTgtgagtttac ... tatgttatagGGCTTGGTTCATGTTGCAAGGAAGATGCCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgtagtttttgttttattaccaacaaaataagtccatgttaatatgttatagGGCTTGGTTCATGTTGCAAGGAAGATGCCCAAAAATGCTCACGCTCATTTTATACTCGGCTTGATGTACCAAAGATTAAGCCAACCTCAAAAG
                                       tgttaat  putative branch site (score: 3)
     tagtttttgttttatt  TA-rich tract