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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaattctcatctttttgggtttaacttttgcttcgttctctatctgaatctttttctcttgatgttttcagGACAGGATTTGTCCCCAGTGGACTTGATCAACGTCCATCAATTTGCACAGAGGGTAATGGACCTATCTGAGTACAGAAAAAACTTGTATGATTACCTGGT

Basic information

species Glycine max
transcript GLYMA17G13770.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G13770.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os07g46720.2 (Oryza sativa), 3'ss of exon 4
---------------------gtagaatt---ctcatctttttgggtttaacttttgcttcgttctctatctgaatctttttctcttgatgttttcagGACAGGATTTGTCCCCAGTGGACTTGATCAACGTCCATCAATTTGCACAGAGGGTAATGGACCTATCTGAGTACAGAAAAAACTTGTATGATTACCTGGT
                       | ||||       ||  |    ||   | |  ||  |  ||  |  |     | | ||   | || |||||||||| |||||| | || ||||| || |||||||| ||||| || || || || ||||| ||| | |||||||| |||||||||||  | ||||| || || ||
gtaactataatacaatttgctccataattgagtatgtccctaatagtcgcagtagtggcttctttgcagttcacttatgttctccatggtgttttcagGCCAGGATCTTTCACCAGTTGATTTGATCAATGTCCAACAGTTCGCTCAAAGGGTCATGAATCTATCTGAATACAGAAAAAATCTTTATGAGTATCTAGT

upper sequence: GLYMA17G13770.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g01720.t01 (Vitis vinifera), 3'ss of exon 4
-------------gtagaattctcatct----ttttgggtttaacttttgcttcgttctctatctgaatc--tttttctcttgatgtttt---------cagGACAGGATTTGTCCCCAGTGGACTTGATCAACGTCCATCAATTTGCACAGAGGGTAATGGACCTATCTGAGTACAGAAAAAACTTGTATGATTACCTGGT
              |  |  || |   |    | |   || |   || |  ||| ||  ||||   || |  || ||  ||||  ||||          |||||||||||||||||||| | |||||||| || ||||| |||||||| ||||||||||||||||| ||||||||||| || ||  ||||||| || |||||
gtagacctcttgaattcatctcccgcataaagtctcatgtcttttttcta-ttcattgcctattaaaaacaattatttacttggggtttcaattttttgcagGACAGGATTTGTCCCCAATTGACTTGATTAATGTCCAGCAATTTGCGCAGAGGGTAATGGACCTCTCTGAGTACAGGAAGAAGCTGTATGAATATCTGGT
















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|193611718|gb|FK565361.1|FK565361
EST:     AGATGAAGATAAAGCAAAGGAGATTGTGGAAGCTGCCAAAGCCTCCATGG                         GACAGGATTTGTCCCC
genomic: AGATGAAGATAAAGCAAAGGAGATTGTGGAAGCTGCCAAAGCCTCCATGGgtagaattct ... atgttttcagGACAGGATTTGTCCCC
EST: gi|193534205|gb|FK492118.1|FK492118
EST:     AGATGAAGATAAAGCAAAGGAGATTGTGGAAGCTGCCAAAGCCTCCATGG                         GACAGGATTTGTCCCCAGTGGACTTGATCAACGTCCATCAATTTGCACAGA
genomic: AGATGAAGATAAAGCAAAGGAGATTGTGGAAGCTGCCAAAGCCTCCATGGgtagaattct ... atgttttcagGACAGGATTTGTCCCCAGTGGACTTGATCAACGTCCATCAATTTGCACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggtttaacttttgcttcgttctctatctgaatctttttctcttgatgttttcagGACAGGATTTGTCCCCAGTGGACTTGATCAACGTCCATCAATTTGCACAGAGGGTAATGGACCTATCTGAGTACAGAAAAAACTTGTATGATTACCTGGT
                                tctttttctcttgatg  CT-rich tract
                              aatcttttt  TA-rich tract