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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtgtttttttgagtttgcactattgctgaaattaatgctcttttggatttgaaattgtggcagccgattgtaacatcttttacttggtttattatgcagGAATTTGGGCAGGAATGCATACTGTTAGATATTTTGATGGGAAAACATACAAATGGGTTGGTCTAAGCCAGCAGCCTAATATAATAGGAAAAGTATGTTT

Basic information

species Glycine max
transcript GLYMA20G25830.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 11
lower sequence: AT1G15110.1 (Arabidopsis thaliana), 3'ss of exon 9
agtgtttttttgagtttgcactattgctgaaattaatgctcttttggatttgaaattgtggcagccgattgtaacatcttttacttggtttattatg-cagGAATTTGGGCAGGAATGCATACTGTTAGATATTTTGATGGGAAAACATACAAATGGGTTGGTCTAAGCCAGCAGCCTAATATAATAGGAAAAGTATGTTT
 || |  || | |   | |  |  |  |  |  |   |  |||||  |  ||   || |||          ||||| |||||  |   || || |||  ||| || |||||||||||| |||| ||| ||||||||||||| ||||||||  | ||||||||  | ||||  |||||||| || || || |||        
-gtatgattcttaagctaccttgctattctatatgtagtgcttttaaacatg---ttatgg---------ataacagcttttcttgttttaatcatggtagGTATCTGGGCAGGAATGTATACAGTTCGATATTTTGATGGAAAAACATATGAGTGGGTTGGCATTAGCCGCCAGCCTAACATTATTGGCAAA--------

upper sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 9
--agtgtttttttgagtttgcactattgctgaaattaatgctcttttggatttgaaattgtggcagccgattgtaacatcttttacttggtttattatgcagGAATTTGGGCAGGAATGCATACTGTTAGATATTTTGATGGGAAAACATACAAATGGGTTGGTCTAAGCCAGCAGCCTAATATAATAGGAAAAGTATGTTT
  | | ||   |  ||||| ||  |||       | |||      | | || |     ||||| |||| ||| | |||  ||  |  || |||| |||||||| |||||||| ||||||||||||||||||||||||||||| | ||||||| | ||||||||| |||||| |||||| ||||| || || |||        
tcatttttgcatctagttt-cagaatttagtttgtgaattaagaatggtatgtagtcctgtgg-agccaattatgacaagttgcatatgatttaatatgcagGTATTTGGGCTGGAATGCATACTGTTAGATATTTTGATGGAAGAACATACGAGTGGGTTGGTATAAGCCGGCAGCCCAATATTATTGGCAAA--------
















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|12774353|gb|BG239280.1|BG239280
EST:     ATTATTCTTGACATTTTGATCTGCAATTGGTTTG                         GAATTTGGGCAGGAATGCATACTGTTAGATATTTTGATGGGAAAACATACA
genomic: ATTATTCTTGACATTTTGATCTGCAATTGGTTTGgtaagagttt ... tattatgcagGAATTTGGGCAGGAATGCATACTGTTAGATATTTTGATGGGAAAACATACA
EST: gi|12774461|gb|BG239388.1|BG239388
EST:     TATTCTTGACATTTTGATCTGCAATTGGTTGG                         GAATTTGGGCAGGAATGCATACTGTTAGATATTTTGATGGGAAAACATACA
genomic: TATTCTTGACATTTTGATCTGCAATTGGTTTGgtaagagttt ... tattatgcagGAATTTGGGCAGGAATGCATACTGTTAGATATTTTGATGGGAAAACATACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatttgaaattgtggcagccgattgtaacatcttttacttggtttattatgcagGAATTTGGGCAGGAATGCATACTGTTAGATATTTTGATGGGAAAACATACAAATGGGTTGGTCTAAGCCAGCAGCCTAATATAATAGGAAAAGTATGTTT
                       ttgtaac  putative branch site (score: 2)
                                           tttattat  TA-rich tract