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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ttacctttttccttctttttgattttttcttttattctacttgttgctattattatctttacttgtttctattattacggtttttgttgtttcatgttcatggttatcatttatcaatctgcttcagtcttatatttttaatttctgtagaGGGACTGTTCGATATGCCAGTGTTCATGCTCATTTGGGAAGAACTGCTAGTAGAAGGGATGATCTTGAATCTCTTGCATATACACTCATCTTCCTTCATA

Basic information

species Glycine max
transcript GLYMA18G53810.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 8
ttacctttttccttctttttgattttttcttttattctacttgttgctattattatctttacttgtttctattattacggtttttgttgtttcatgttcatggttatcatttatcaatctgcttcagtcttatatttttaatttctgtagaGGGACTGTTCGATATGCCAGTGTTCATGCTCATTTGGGAAGAACTGCTAGTAGAAGGGATGATCTTGAATCTCTTGCATATACACTCATCTTCCTTCATA
                                               || |||  | | ||||  |  ||| ||| |         |||||| ||  ||    ||| | ||| |  |        |    | | || ||||||| | ||||||||| ||| |||| || ||||  ||||||||||| || ||||||||||| |||||||||||||| |||||  | ||||||||||| ||||| |||||  
----------------------------------------------gtaatatattttctactgttacctaatataat--------ttgttttatactcgctcttaccttttgttga--------atctctctcttcttaatttttatagAGGGACAGTTAGATACGCAAGTGCACATGCTCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCAC-

upper sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 3'ss of exon 8
ttacctttttccttctttttgattttttcttttattctacttgttgctattattatctttacttgtttctatta-ttacggtttttgttgtttcatgttcatggttatcatttatcaatctgcttcagtcttatatttttaatttctgtagaGGGACTGTTCGATATGCCAGTGTTCATGCTCATTTGGGAAGAACTGCTAGTAGAAGGGATGATCTTGAATCTCTTGCATATACACTCATCTTCCTTCATA
                                                    | |  |    |||| | | |     | | ||| || | ||| |  ||  |  || | ||   ||| |||   | | | |||  | |||  ||  |  || || |||||  ||||||| |||||||||||||| |||||||||||||| || ||||| || ||||| || |||||||||||||||||||||||||||||| 
---------------------------------------------------gtgaattgatgttgtgtttgtgggccatgctttgtgatttttgaacttattttttttaatccttcattcttgattatttttac-tgtttgcttcatccagGGGAACTGTGAGATATGCTAGTGTTCATGCTCACTTGGGAAGAACTGCCAGCAGAAGAGACGATCTAGAGTCTCTTGCATATACACTCATCTTCCTTCAT-

upper sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ19085 (Selaginella moellendorffii), 3'ss of exon 6
ttacctttttccttctttttgattttttcttttattctacttgttgctattattatctttacttgtttctattattacggtttttgttgtttcatgttcatggttatcatttatcaatctgcttcagtcttatatttttaatttctgtagaGGGACTGTTCGATATGCCAGTGTTCATGCTCATTTGGGAAGAACTGCTAGTAGAAGGGATGATCTTGAATCTCTTGCATATACACTCATCTTCCTTCATA
                                                                                        || |||   |  ||      || | |  ||| |  | ||| |||    ||   ||||   || || |||||||| || || ||||| ||||| ||  |||| ||||| | |||||||||||| ||||| ||||||||||| || || || || ||| | | ||
----------------------------------------------------------------------------------------gtatcactcttgtg-----tatctgtggatcgggctaagttttag---ttgtgtttc---agGGGAACTGTTCGGTACGCAAGTGTCCATGCGCACCTGGGTAGAACCGGTAGTAGAAGGGACGATCTGGAATCTCTTGCCTACACGCTGATATTCTTAC-TA

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|7588450|gb|AW704307.1|AW704307
EST:     CCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGA                         GGGACTGTTCGATATGCCAGTGTTCATGCTCATCTGGGAAGAACTGCTAGT
genomic: CCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGGttaccttttt ... tttctgtagaGGGACTGTTCGATATGCCAGTGTTCATGCTCATTTGGGAAGAACTGCTAGT
EST: gi|193538003|gb|FK498020.1|FK498020
EST:     CCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGA                         GGGACTGTTCGATATGCCAGTGTTCATGCTCATTTGGGAAGAACTGCTAGT
genomic: CCTCCAGTGGGCAGCATGTTGAATATGATCAACGCCCTGATATGTTTAGGttaccttttt ... tttctgtagaGGGACTGTTCGATATGCCAGTGTTCATGCTCATTTGGGAAGAACTGCTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatggttatcatttatcaatctgcttcagtcttatatttttaatttctgtagaGGGACTGTTCGATATGCCAGTGTTCATGCTCATTTGGGAAGAACTGCTAGTAGAAGGGATGATCTTGAATCTCTTGCATATACACTCATCTTCCTTCATA
                                       ttttaat  putative branch site (score: 3)
                                             tttctgt  CT-rich tract
                          ttcagtcttatatttt  TA-rich tract