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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattcagagttttcttggcatccctattggagttctccacatgcacttttcttgaccttataattttgcctgcagGGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTGTTACTGTTGCATCTGTTGGGGATTCCCGTTGCATATTAGATACTCAAGG

Basic information

species Glycine max
transcript GLYMA10G29060.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G29060.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G09160.2 (Arabidopsis thaliana), 3'ss of exon 3
--------------gtacattcagagttttcttggcatccctattggagttctccacatgcacttttcttgaccttata-attttgcctgcagGGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTGTTACTGTTGCATCTGTTGGGGATTCCCGTTGCATATTAGATACTCAAGG
               ||  ||   |    | || || |  |||||   ||| | ||      || |    ||    ||   || ||| | |||||||||||||||||||||| |  || |||||| |  ||||||| |||||| |||||||||| |||||||| || || || |||||||| || || |||||
gtcttagcttatgcttattttttaaaggctttttgc-tttctattcttgtttttcaagcatgctctaaccgataagatctgttgtgcttacagGGGAAACTTCAGGAACAACCGTGACTTTTGTTATAATTGATGGTTGGACTATTACTGTTGCTTCTGTTGGTGACTCGCGCTGCATATTGGACACCCAAGG

upper sequence: GLYMA10G29060.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0060g01580.t01 (Vitis vinifera), 3'ss of exon 3
--------gtacattcagagttttcttggc----atccctattggagttctccacatgcacttttcttgaccttataattttgcctgcagGGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTGTTACTGTTGCATCTGTTGGGGATTCCCGTTGCATATTAGATACTCAAGG
         ||  | |  | |||      |    | || | ||| |  | |     ||  ||| |||| |   | | || |      |||| |||||||| || || ||||  ||||||||| || |||| || ||||| || |||||||||||||| |||||||| || |||||||| || || || ||
gcaagaacctatttccctaatttcagcatctctaagccttgttgcatatatttttgtgttcttatctttaatatttgatataaatgacagGTGAAACTTCTGGCACGACAGTGACATTTGTTGTGATTGACGGGTGGACGGTGACTGTTGCATCTGTAGGGGATTCTCGATGCATATTGGACACACAGGG
















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|6134100|gb|AW132493.1|AW132493
EST:     TGCTCTAGTTGTTGGTTTTGTAAAAACTGACATAGAGTTTCAGAAAAAAG                         GGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTG
genomic: TGCTCTAGTTGTTGGTTTTGTAAAAACTGACATAGAGTTTCAGAAAAAAGgtacattcag ... ttgcctgcagGGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTG
EST: gi|7589002|gb|AW704785.1|AW704785
EST:     TGCTCTAGTTGTTGGTTTTGTAAAAACTGACATAGAGTTTCAGAANAAAG                         GTGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTG
genomic: TGCTCTAGTTGTTGGTTTTGTAAAAACTGACATAGAGTTTCAGAAAAAAGgtacattcag ... ttgcctgcagGGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTG
EST: gi|213620428|gb|DB957325.1|DB957325
EST:     TGCTCTAGTTGTTGGTTTTGTAAAAACTGACATAGAGTTTCAGAAAAAAG                         GGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTG
genomic: TGCTCTAGTTGTTGGTTTTGTAAAAACTGACATAGAGTTTCAGAAAAAAGgtacattcag ... ttgcctgcagGGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTG
EST: gi|298184440|gb|HO029653.1|HO029653
EST:     TGCTCTAGTTGTTGGTTTTGTAAAAACTGACATAGAGTTTCAGAAAAAAG                         GGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTG
genomic: TGCTCTAGTTGTTGGTTTTGTAAAAACTGACATAGAGTTTCAGAAAAAAGgtacattcag ... ttgcctgcagGGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccctattggagttctccacatgcacttttcttgaccttataattttgcctgcagGGGAAACTTCAGGAACAACAGCTACATTTGTTCTGGTTGATGGATGGACTGTTACTGTTGCATCTGTTGGGGATTCCCGTTGCATATTAGATACTCAAGG
                             tcttgac  putative branch site (score: 3)
                                           ttttgcct  putative PPT
                                     ttataatttt  TA-rich tract