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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattatactactgctactactactactgctattgttgttgttgttagtttgatattgctctaagaatttttgttgtgaattatggtttgtttgttggggtgatgagtttatttttttttgtgttttgttgttgttgtgacagCTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGATTGCGGAAGCAATTGATAAGGTTGGACCTGATGGTGTTTTGTCCATTGAGTC

Basic information

species Glycine max
transcript GLYMA12G08310.1
intron # 4
splice site 3'
intron type U2

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|209722984|gb|BW668826.1|BW668826
EST:     GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAG                         CTGTTGCTTCCATTTCTGCTGGAA
genomic: GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAGgtattatact ... gttgtgacagCTGTTGCTTCCATTTCTGCTGGAA
EST: gi|209697442|gb|BW667088.1|BW667088
EST:     GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAG                         CTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAA
genomic: GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAGgtattatact ... gttgtgacagCTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAA
EST: gi|213590374|gb|DB963895.1|DB963895
EST:     GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAG                         CTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGAT
genomic: GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAGgtattatact ... gttgtgacagCTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGAT
EST: gi|193500714|gb|FK464511.1|FK464511
EST:     GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAG                         CTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGATTG
genomic: GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAGgtattatact ... gttgtgacagCTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGATTG
EST: gi|209700191|gb|BW653009.1|BW653009
EST:     GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAG                         CTGTTGCTTCCATTTCTGCTGGANATGATGAGTTGATTGGGCAAATGATTG
genomic: GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAGgtattatact ... gttgtgacagCTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGATTG
EST: gi|16282250|gb|BI944915.1|BI944915
EST:     GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAG                         CTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGATTG
genomic: GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAGgtattatact ... gttgtgacagCTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGATTG
EST: gi|207841904|gb|GD814992.1|GD814992
EST:     GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAG                         CTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAA
genomic: GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAGgtattatact ... gttgtgacagCTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAA
EST: gi|213602553|gb|DB956573.1|DB956573
EST:     GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAG                         CTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGATTG
genomic: GGAGTTGGAGAAGAAGGCTAGGCCTGTCAAAGGTGGAGATGATATCAAAGgtattatact ... gttgtgacagCTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttgttggggtgatgagtttatttttttttgtgttttgttgttgttgtgacagCTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGATTGCGGAAGCAATTGATAAGGTTGGACCTGATGGTGTTTTGTCCATTGAGTC
                   tttatttttttttgtg  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattatactactgctactactactactgctattgttgttgttgttagtttgatattgctctaagaatttttgttgtgaattatggtttgtttgttggggtgatgagtttatttttttttgtgttttgttgttgttgtgacagCTGTTGCTTCCATTTCTGCTGGAAATGATGAGTTGATTGGGCAAATGATTGCGGAAGCAATTGATAAGGTTGGACCTGATGGTGTTTTGTCCATTGAGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA