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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcaattacctgtgtattaagtgttgtctcattcatctcgtctccattatcttaatttgagctttatctttttacactctagGCTGGTGCCAAGAAAGTTGTAATATCAGCTCCATCGGCGGATGCACCAATGTTTGTGGTAGGAGTGAATGAGAAGACATACAACCCAAAAATGGACATTG

Basic information

species Glycine max
transcript GLYMA03G22790.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G22790.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 3'ss of exon 7
----gtattcaattacctgtgtattaagtgttgtctcattcatctcg----tctccattatcttaatt--tgagctttatctttttacactctagGCTGGTGCCAAGAAAGTTGTAATATCAGCTCCATCGGCGGATGCACCAATGTTTGTGGTAGGAGTGAATGAGAAGACATACAACCCAAAAATGGACATTG
    |||  | |||  || |  |||      |  || |   ||  |     | |  |||   | || |  |||  ||| | |   |    | ||||  ||||| ||||||||||| ||||| |||||||| || ||||| ||||||||||| || ||||| ||||||||||  ||  | || |||||| |  |||
gtttgtacaccatt-tctatacattgccatctaactgagaaatggcaagcttttatattggataaaatggtgatgtttttatgccttgtttgtagGGCGGTGCTAAGAAAGTTGTGATATCTGCTCCATCAGCAGATGCTCCAATGTTTGTCGTTGGAGTAAATGAGAAGAGCTATGATCCTAAAATGAATGTTG

upper sequence: GLYMA03G22790.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 7
----------gtattcaattacctgtgtattaagtgttgtctcattcatctcgtc--tccattatcttaatttgagct-ttatc-tttttacactctagGCTGGTGCCAAGAAAGTTGTAATATCAGCTCCATCGGCGGATGCACCAATGTTTGTGGTAGGAGTGAATGAGAAGACATACAACCCAAAAATGGACATTG
           |||    |   || | |||||  | || |        ||| | |   ||| | |  | |  | ||   || || | |||| | |  ||| ||||||||||||||| ||||| ||||||||||| || |||||||| ||||||||||||||||| |||||||   ||||||| ||||  ||| | ||||
gttcgttggtatatgttgtggactttatattagttcttctaaacactctcttgccaccccactgtgctgaagtcagtgattgtcgtctttataatgcagGGTGGTGCCAAGAAAGTGGTAATTTCAGCTCCATCAGCTGATGCACCGATGTTTGTGGTAGGAGTAAATGAGACTTCATACAAGCCAAGCATGAATATTG
















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|192322626|gb|FK014363.1|FK014363
EST:     AGTCTTCAGGAGTTTTTACAACAGTGGAGAAAGCTTCATCACATTTGAAG                         GCTGGTGCCAAGAAAGTTGTAATATCAGCTCCATCGGCGGATGCACCAATG
genomic: AGTCTTCAGGAGTTTTTACAACAGTGGAGAAAGCTTCATCACATTTGAAGgtattcaatt ... tacactctagGCTGGTGCCAAGAAAGTTGTAATATCAGCTCCATCGGCGGATGCACCAATG
EST: gi|208297585|gb|GE090588.1|GE090588
EST:     AGTCTTCAGGAGTTTT-ACAACAGTGGAGAAAGCTTCATCACATTTGAAG                         GCTGGTGCCAAGAAAGTTGTAATAT
genomic: AGTCTTCAGGAGTTTTTACAACAGTGGAGAAAGCTTCATCACATTTGAAGgtattcaatt ... tacactctagGCTGGTGCCAAGAAAGTTGTAATAT
EST: gi|207800666|gb|GD775055.1|GD775055
EST:     AGTCTTCAGGAGTTTT-ACAACAGTGGAGAAAGCTTCATCACATTTGAAG                         GCTGGTGCCAAGAAAGTTGTAATAT
genomic: AGTCTTCAGGAGTTTTTACAACAGTGGAGAAAGCTTCATCACATTTGAAGgtattcaatt ... tacactctagGCTGGTGCCAAGAAAGTTGTAATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcattcatctcgtctccattatcttaatttgagctttatctttttacactctagGCTGGTGCCAAGAAAGTTGTAATATCAGCTCCATCGGCGGATGCACCAATGTTTGTGGTAGGAGTGAATGAGAAGACATACAACCCAAAAATGGACATTG
                      tcttaat  putative branch site (score: 3)
                                  ctttatctttttac  putative PPT
                  attatcttaatttga  TA-rich tract