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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttatttttaattataaagattaagattatttgttttatcttgtcatattctacataaactaaatcgtggcagtgcttacctactgtagGCATGCTTTTCTCCCCTATCTGATGCAAGCTCCTTTGTGATACTTTATATTGTTACGTCAGTATACTTTTCTGGAGTCATG

Basic information

species Glycine max
transcript GLYMA16G08410.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 13
lower sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 13
gtgagttat-ttttaattataaagattaa---gattatttgttttat-------cttgtc---atattctacataaactaaatcgtggcagtgcttacctactgt----agGCATGCTTTTCTCCCCTATCTGATGCAAGCTCCTTTGTGATACTTTATATTGTTACGTCAGTATACTTTTCTGGAGTCATG
||||||||  |||| ||| ||   | |||   |||| | || |  ||        |||||   ||||| |   |  | |   || |  |  | |||| || ||||    |||| |||||||| || ||||||||||| ||||| |||||| | ||||| ||||| | ||| ||||||||||||||||| |||
gtgagttaaattttgattgtagttactaattagattttgtgctgaataacattttttgtccatatattttgtgttgattctttcct--cttttcttatcttctgttggtagGCGTGCTTTTCGCCTCTATCTGATGCCAGCTCTTTTGTGGTCCTTTACATTGTAATGTCTGTATACTTTTCTGGAGTTATG

upper sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 13
gtgagttatttttaattataaagattaagattatttgttttatcttgtcatattctacataaactaaatc-----gtggcagtgcttacctactg-tagGCATGCTTTTCTCCCCTATCTGATGCAAGCTCCTTTGTGATACTTTATATTGTTACGTCAGTATACTTTTCTGGAGTCATG
|||||||   | ||  | |  |  | || |||  || |  | || |    | ||||  |  |  |  |||      || || || |       ||  ||||||||||||  || |||||||||||||||||||||||  | ||||| || || || || ||||| |||||||||||||||
gtgagtttgatctatctttttacctcaatattgcttttagtttcctacttttttcttaaccatatccatccttgtatgacattggtctttatttggcagGCATGCTTTTTGCCACTATCTGATGCAAGCTCCTTTGTTGTTCTTTACATAGTGACATCTGTATATTTTTCTGGAGTCATG
















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|21637818|gb|BM107973.1|BM107973
EST:     ACTTTATGGATATCAATGTCTTGGCATTCCTGGTTCCAGCTGGCATTATT                         GCATGCTTTTCTCCCCTATCTGATGCAAGCTCCTTTGTGATACTTTATATT
genomic: ACTTTATGGATATCAATGTCTTGGCATTCCTGGTTCCAGCTGGCATTATTgtgagttatt ... cctactgtagGCATGCTTTTCTCCCCTATCTGATGCAAGCTCCTTTGTGATACTTTATATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatcttgtcatattctacataaactaaatcgtggcagtgcttacctactgtagGCATGCTTTTCTCCCCTATCTGATGCAAGCTCCTTTGTGATACTTTATATTGTTACGTCAGTATACTTTTCTGGAGTCATG
                                       tgcttac  putative branch site (score: 2)
                                         cttacct  CT-rich tract
           atattctacataaa  TA-rich tract