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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTGGTTCTGTGTCTTTTGTGGAATATTGTGGCAGTTACTACTGCTTGGATCAAAGGAGAAGgtttgtcttgcaactggatattgatgcatcaattttgttaagtcatgcttaatttaccgacttgtctttccatgtag

Basic information

species Glycine max
transcript GLYMA06G45160.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G45160.1 (Glycine max), 5'ss of exon 7
lower sequence: AT2G20840.1 (Arabidopsis thaliana), 5'ss of exon 6
GTTTGGTTCTGTGTCTTTTGTGGAATATTGTGGCAGTTACTACTGCTTGGATCAAAGGAGAAGgtttgtcttgcaactg--gatattgatgcatcaattttg--ttaagtcatgcttaatttaccgacttgt---ctttccatgtag
|| | || |||| || || ||||| ||||| |||||||||||||| ||||| || ||||||||| |||||| ||| | | ||| | | | | | | ||||| ||| | | ||||| | ||| |||||
GTCTTGTGGTGTGCCTGTTATGGAACATTGTCGCAGTTACTACTGCGTGGATTAAGGGAGAAGgtaagtcttggaacagttaaaatttaccaagtagactgaacctgtatgatgct-aatctgctgacttatgtattttggctgtag
















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|162286177|gb|FC456625.1|FC456625
EST:     TCTTTTATGGAATATTGTGGCAGTTACTACTGCTTGGATCAAAGGAGAAG                         GTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAG
genomic: TCTTTTGTGGAATATTGTGGCAGTTACTACTGCTTGGATCAAAGGAGAAGgtttgtcttg ... ttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAG
EST: gi|31474417|gb|CD416445.1|CD416445
EST:     CTACTGCTTGGATCAAAGGAGAAG                         GTCCAACCATCTGGTTTCTTGCTATAATCTATTTTATTTCTGGTGCTCCAG
genomic: CTACTGCTTGGATCAAAGGAGAAGgtttgtcttg ... ttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAG
EST: gi|13181293|gb|BG352633.1|BG352633
EST:     TCTTTTGTGGAATATTGTGGCAGTTACTACTGCTTGGATCAAAGGAGAAG                         GTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAG
genomic: TCTTTTGTGGAATATTGTGGCAGTTACTACTGCTTGGATCAAAGGAGAAGgtttgtcttg ... ttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAG
EST: gi|21887940|gb|BQ741153.1|BQ741153
EST:     GCAAAGGACGCAAAAGCAAAGGAGAAGGAACTTCAAGCTAAAGAGGCTGAATTGAAAAGAAGGGAACAG
genomic: GCAAAGGACGCAAAAGCAAAGGAGAAGGAACTTCAAGCTAAAGAGGCTGAATTGAAAAGAAGGGAACAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTGGTTCTGTGTCTTTTGTGGAATATTGTGGCAGTTACTACTGCTTGGATCAAAGGAGAAGgtttgtcttgcaactggatattgatgcatcaattttgttaagtcatgcttaatttaccgacttgtctttccatgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA