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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagactcaaatcacataacagggttcttcccccccccccccccccccccccccaccatatattgttaatctgtgtttatgtggtggtgtcagGGGAAATGGAGCTAGTGTTATCCGCATTGTTCCATATGCAGCCTTGCATTTTATGACATATGAGCGCTACAAAAGTTGGATCTTGAATAATTATCCTGCG

Basic information

species Glycine max
transcript GLYMA04G05530.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G05530.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G420119_T01 (Zea mays), 3'ss of exon 2
gtaagactcaaatcacataacagggttcttcccccccccccccccccccccccccaccatat-attgttaatctgtgtttatgtggtggtgtcagGGGAAATGGAGCTAGTGTTATCCGCATTGTTCCATATGCAGCCTTGCATTTTATGACATATGAGCGCTACAAAAGTTGGATCTTGAATAATTATCCTGCG
          | |  |||  |||   |   | |   |       |  |       |  ||||   | | ||||     |||| |||   || ||| || || || || || ||  | || ||||||||||||||||| |||||||  |||||||||||||  || |   | ||||| |||||||||| | || | 
-------gtgagtagcatggcagaaatgc-ctcaggcttttttactgctgaattaagtatattgatctcaatccactgttat-tggccatg-cagAGGGAACGGTGCAAGCGTGCTTCGGATTGTTCCATATGCAGCATTGCATTACATGACATATGAGCAGTATAGGTGCTGGATATTGAATAATTCTGCTTCA

upper sequence: GLYMA04G05530.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0008g01060.t01 (Vitis vinifera), 3'ss of exon 2
gtaagactcaaatcacataacagggttcttcccccccccccccccccccccccccaccatatattgttaatctgtgtttatgtggtggtgtcagGGGAAATGGAGCTAGTGTTATCCGCATTGTTCCATATGCAGCCTTGCATTTTATGACATATGAGCGCTACAAAAGTTGGATCTTGAATAATTATCCTGCG
||||| || || | |   ||        ||    | |           ||||   |   | | ||  |||  | || |||     ||   |||| |||||||| ||||||||| | || ||||| || ||||||||||| |||||||||||||||||||  ||||  || ||||||||||| || |  ||||| 
gtaagtctgaagttattcaa--------tttttactctttgttgttttccccaaaaatgt-ttttcctaacttatgctta---attgtcttcagAGGAAATGGTGCTAGTGTTCTTCGTATTGTACCCTATGCAGCCTTACATTTTATGACATATGAGCAGTACAGGAGCTGGATCTTGAACAACTGCCCTGCC
















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|192315153|gb|FK009977.1|FK009977
EST:     CAATCTATGAATAAGTTACTAAAGCATGAAGGTTTTCTAGGATTATATAA                         GGGAAATGGAGCTAGTGTTATTCGCATTGTTCCATATGCAGCCTTGCATTT
genomic: CAATCTATGAATAAGTTACTAAAGCATGAAGGTTTTCTAGGATTATATAAgtaagactca ... gtggtgtcagGGGAAATGGAGCTAGTGTTATCCGCATTGTTCCATATGCAGCCTTGCATTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccccccccccccccccaccatatattgttaatctgtgtttatgtggtggtgtcagGGGAAATGGAGCTAGTGTTATCCGCATTGTTCCATATGCAGCCTTGCATTTTATGACATATGAGCGCTACAAAAGTTGGATCTTGAATAATTATCCTGCG
                         tgttaat  putative branch site (score: 3)
                   atatattgttaatct  TA-rich tract