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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactatcctgtgagttcatcacttaagttatgttctcttttcattaagtaattgtgttgcttgccttccactgttatttctcactttggggtttggtttttgatatactgtgttgatcttaccttttttggtcataagatagATTGAAACTCCAATTCTGTCAAGATCCACACCAGAAGGTGCCCGGGATTATTTAGTTCCATCAAGAATCCAG

Basic information

species Glycine max
transcript GLYMA05G34820.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G34820.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G33760.1 (Arabidopsis thaliana), 3'ss of exon 4
gtactatcctgtgagttcatcacttaagttatgttctcttttcattaagtaattgtgttgcttgccttccactgt-tatttctcactttggggtttggtttttgatatactgtgttgatcttaccttttttggtcataagatagATTGAAACTCCAATTCTGTCAAGATCCACACCAGAAGGTGCCCGGGATTATTTAGTTCCATCAAGAATCCAG
                                             |  ||   |    |  |||   || | | | ||||| ||| ||| ||      ||     | |    ||||| |||        ||| | ||  |  |||||||||||||||| || || ||||| || |||||||| || || |||||| | ||||| |||||||| |||
--------------------------------------------gtgtgttcctactctatttgaaatctaatttatatttttcagttttgg--ccatttcccagtttttcatgttggtct-------gttgtttat--gtcagATTGAAACTCCAATACTCTCTAGATCTACTCCAGAAGGCGCGCGAGATTATCTGGTTCCGTCAAGAATTCAG

upper sequence: GLYMA05G34820.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv03s0088g00500.t01 (Vitis vinifera), 3'ss of exon 4
gtactatcctgtgagttcatcacttaagttatg-ttctcttttcattaagta-attgtgttgcttgc-cttccactgttattt-ctcactttggggtttggtttttgatatactgtgttgatcttaccttttttggtcataagatagATTGAAACTCCAATTCTGTCAAGATCCACACCAGAAGGTGCCCGGGATTATTTAGTTCCATCAAGAATCCAG
||| |||||| ||   |  | | |  ||||    ||||   ||||   | || ||| | | |  | | |||  | | ||||||  |    ||   ||||  ||||  |||   | | |||||| |  |||||       ||   |||||||| |||||||| || || ||||| || ||||| ||||| ||||||||||| || || |||||| | |||
gtattatcctttgcagttttaattacagttgaacttcttacttcaaatattatattttataggattcacttaaaatattatttgtttggatttatgtttaattttc-atactatattttgatcgtgactttt------gtagagtagATTGAGACTCCAATACTCTCTAGATCTACTCCAGAGGGTGCTCGGGATTATTTGGTGCCCTCAAGAGTTCAG
















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|16276695|gb|BI941986.1|BI941986
EST:     TGGTTAAACTCATTCGAAGATATCTAGAAGACGTTCATGGTTTTGTTGAG                         ATTGAAACTCCAATTCTGTCAAGATCCACACCAGAAGGTGCCCGGGATTAT
genomic: TGGTTAAACTCATTCGAAGATATCTAGAAGACGTTCATGGTTTTGTTGAGgtactatcct ... cataagatagATTGAAACTCCAATTCTGTCAAGATCCACACCAGAAGGTGCCCGGGATTAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggggtttggtttttgatatactgtgttgatcttaccttttttggtcataagatagATTGAAACTCCAATTCTGTCAAGATCCACACCAGAAGGTGCCCGGGATTATTTAGTTCCATCAAGAATCCAG
                            atcttac  putative branch site (score: 3)
         tttttgatata  TA-rich tract