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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttagttttgcacctgtgttgtgttgtatttgcctaatgattgtaaggttggtatgctcacaatgacatagtgtggcttcttgtttgattagGTGTTGATTTCGGTGCTATTAGATCTGCCAGGACTACTTTTTTTCTCAACATATACACTTCTTGTCCTTTTCTGGGCAGAAATTTATCACCAG

Basic information

species Glycine max
transcript GLYMA07G38920.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G38920.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0116g00020.t01 (Vitis vinifera), 3'ss of exon 3
------gttagttagttttgcacctgtgttgtgttgtatttgcctaatgattgtaaggttggtatgctcac--aatgacatagtgtggcttcttgtttgattagGTGTTGATTTCGGTGCTATTAGATCTGCCAGGACTACTTTTTTTCTCAACATATACACTTCTTGTCCTTTTCTGGGCAGAAATTTATCACCAG-------
        ||| | ||    |||   |||| |  || || |   ||     |  |  | |   | ||        |||||   ||    | | | ||  || ||||  |||||| |||  | || ||||| || ||||| || |||||||| ||||| ||||||||||| || || |||||||| || |||||||||       
cactggaatagatggtaccacac---tgttttcctgcatct-tgtagcatctacagtgctcaaaggcctgtttgctgacagcatgcatttgcatcttgaatcagGTACTGATTTTGGTATTGTTGGATCTTCCTGGACTTCTGTTTTTCTCTACATACACACTTCTTGTGCTATTTTGGGCAGAGATATATCACCAGGCAAGTA

upper sequence: GLYMA07G38920.2 (Glycine max), 3'ss of exon 3
lower sequence: PP1S295_28V6.1 (Physcomitrella patens), 3'ss of exon 3
gttagttagttttgcacctgtgttg-tgt-tgtatttgcctaatgattgtaaggttggtatgctcacaatgaca---tagtgtggcttcttgtttgatt--agGTGTTGATTTCGGTGCTATTAGATCTGCCAGGACTACTTTTTTTCTCAACATATACACTTCTTGTCCTTTTCTGGGCAGAAATTTATCACCAG
     |  ||| || |  |  | ||  || ||| ||      ||   | |||        | | | || | ||    | |||||   |||  | ||  |  || | |||      || || || |||||||| ||  || |||| ||| |||||||||| ||||| || ||||||||||| ||||| |||||||||
---gctgtgttgtgaaagtcagctgacgtatgtgttcaaactatatctttaattccaccctccgctcactcaccgattggtgtgcgatctcatctggatgcagATATTGCAACACGTTCTTTTGGATCTGCCGGGCATAATTTTCTTCACAACATATACTCTTCTGGTGCTTTTCTGGGCTGAAATCTATCACCAG
















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|26268856|gb|CA819919.1|CA819919
EST:     GTGCTGTGGTGTTTGGATTGCACAAGCTAGTTTTTCTTTTGCATCCTAAG                         GTGTTGATTTCGGTGCTATTAGATCTGCCAGGACTACNNNNNNNCTCAACA
genomic: GTGCTGTGGTGTTTGGATTGCACAAGCTAGTTTTTCTTTTGCATCCTAAGgttagttagt ... gtttgattagGTGTTGATTTCGGTGCTATTAGATCTGCCAGGACTACTTTTTTTCTCAACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgattgtaaggttggtatgctcacaatgacatagtgtggcttcttgtttgattagGTGTTGATTTCGGTGCTATTAGATCTGCCAGGACTACTTTTTTTCTCAACATATACACTTCTTGTCCTTTTCTGGGCAGAAATTTATCACCAG
                 tgctcac  putative branch site (score: 2)
                                       cttcttgttt  putative PPT
                                              tttgatta  TA-rich tract