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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagcagcttctcttatttatttattttattttatgacttattatatagaaattaaaggatattttagtttgctgattgcttttatgttttattcttttgaaaaaatcatttttcatctctatatgttactttttttttgtctagTCTCTGCTTCCAGATTACCAACGACTATTGAGTTCCATGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGCG

Basic information

species Glycine max
transcript GLYMA09G38740.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G38740.1 (Glycine max), 3'ss of exon 7
lower sequence: AC218972.3_FGT001 (Zea mays), 3'ss of exon 7
gtcag--cagcttctcttatttatttattttattttatgacttattatatagaaattaaaggatattttagtttgctgattgcttttatgttttattcttttgaaaaaatcatttttcatctctatatgttactttttttttgtctagTCTCTGCTTCCAGATTACCAACGACTATTGAGTTCCATGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGCG
|||||  ||  |  | | |  || | | || |||||      |   ||    |  || |  | | ||  ||||| |  | || | | |      |   || |    |  |   | ||  |   |||    || ||| ||    | |||||||| ||||||||||||||  | || |||| |||||  || ||||||||| ||||| | ||||| ||||| || |||||||
gtcagctcacatgatttcagctagtcactt-attttgcactgtgcaatt---accttcattgcttttggagtttccccactgttctaactgcagaagtttgtatgcatttgtgtctttttggttattgactattttcttccc-tgtagTCTCTACTTCCAGATTACCAGAGGCTCTTGAATTCCACACCTTCTCGTAGACTAAATCCTTCAAAACTTATTGACAACAGCG

upper sequence: GLYMA09G38740.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G40730.1 (Arabidopsis thaliana), 3'ss of exon 7
gtcagcagcttctcttatttatttattttattttatgacttattatatagaaattaaaggatattttagtttgctgattgcttttatgttttattcttttgaaaaaatcatttttcatctctatatgttactttttttttgtctagTCTCTGCTTCCAGATTACCAACGACTATTGAGTTCCATGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGCG
                                        | ||      || ||    ||| | ||| |||  |   || || ||||  ||    || |  || |      ||| || ||  | ||    ||| ||||     ||||||||||||||||||| || |||||  | ||||||||||| ||||| ||||| || || ||||| ||| |||||||  |||
----------------------------------------tgtttccccaaagtttt--gatgtgttacttt-ttatctgtttgtatgactttgaattct--aagagctggctttgatttcggt-tgaatttttcttttctcacagTCTCTGCTTCCAGATTATCAGCGACTCCTAAGTTCCATGCCTTCTCGCAGATTGAACACCTCAAAACTTCTAGAAAATGGCG

upper sequence: GLYMA09G38740.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv13s0067g03110.t01 (Vitis vinifera), 3'ss of exon 7
--------------------------------------gtcagcagcttctcttatttatttattttattttatgacttattatatagaaat-taaaggatattttagtttgctgattgct-tttatgttttattcttttgaaaaaatcatttttcatctctatatgttactttttttttgtc-tagTCTCTGCTTCCAGATTACCAACGACTATTGAGTTCCATGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGCG
                                       |  ||   |||||   ||   | | |||  ||||    |  |   || ||  |       || | |  |  ||    |     ||||  | | |  ||||||||||| ||||||| ||| |  || |||   |||| || | ||  ||||||| ||||||||||| || || || ||||||||||||||  |||| || || || ||||| |||||||||||||| || |
gtcagtttttaattgtttgggatggatcattgattgcaattggccctttctccggttctatcactttgctttacttttcctctcatggagttgccttttatgtatgtgcatgtgtgtcatggtttacttctcaagcttttgaaaaattcatttt-catttgcatctgtctattttcttgtctcacagTCTCTACTTCCAGATTATCAGCGGCTCTTGAGTTCCATGCCTGCTCGCAGGTTGAACACATCGAAGCTTATAGAAAATAGTG

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|254342248|gb|GR853385.1|GR853385
EST:     TGAGGTTGGGCAAAACAGAGGAGTTACGCAACATTGGTTCCATTCCGAAG                         TCTCTGCTTCCAGATTACCAACGACTATTGAGTTCCATGCCCTCTCGTAGA
genomic: TGAGGTTGGGCAAAACAGAGGAGTTACGCAACATTGGTTCCATTCCCAAGgtcagcagct ... ttttgtctagTCTCTGCTTCCAGATTACCAACGACTATTGAGTTCCATGCCCTCTCGTAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattcttttgaaaaaatcatttttcatctctatatgttactttttttttgtctagTCTCTGCTTCCAGATTACCAACGACTATTGAGTTCCATGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGCG
                                    ttactttttttttgtc  CT-rich tract
     ttttgaaaaaatcatt  TA-rich tract