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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGGTGCCGGGTTTCCAGCTGTTGTAACAGCTCATTTTGTCCCCATGGAAGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtcagtggttttgtttgtcatgtgtgcacatactgttagctacattctaaactgatagtttcgtttctgggtttctatcttccagg

Basic information

species Glycine max
transcript GLYMA18G03480.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G03480.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os01g51220.1 (Oryza sativa), 5'ss of exon 7
-GATGGTGCCGGGTTTCCAGCTGTTGTAACAGCTCATTTTGTCCCCATGGAAGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtcagtggttttgtttgtcatgtgtgcacatactgttagctacattctaaactgatagtttcgtttctgggtttctatcttccagg------------
 ||   ||| || ||||| || || || || || || ||||| || || || || |||||| | ||| |||||||||| ||||||||||||||||||||||||     |   ||  ||||||| || | | |  | | ||| ||   || | |    || | |   |  ||| |||      ||  |   ||             
GGAAAATGCTGGCTTTCCTGCGGTAGTTACTGCACACTTTGTGCCAATTGAGGGCCAACAAAGGCCAAGGACAACAATCTTGATAAAATTTGCTGAAGAGgtaggagatgcttgtatttgtttttctt-tctttaga-actatttaatataataggcacagttgact--gttactgaacaa-tacttattagacttaaccaaata

upper sequence: GLYMA18G03480.1 (Glycine max), 5'ss of exon 8
lower sequence: AT5G58030.1 (Arabidopsis thaliana), 5'ss of exon 7
-GATGGTGCCGGGTTTCCAGCTGTTGTAACAGCTCATTTTGTCCCCATGGAAGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtcagtggttttgtttgtcatgtgtgcacatactgttagctacattctaaact-gatagtttcgtttctgggtttctatcttccagg
 |||   || |||||||| ||||| ||||| ||||||||||| ||||| ||||| |||||||| || || || || |||||||| || |||||||| ||||| || || |     |  | | | |      |  | ||  |||  |  | | |  |  || || ||||   || ||   | | |  |   ||| 
GGATAACGCAGGGTTTCCTGCTGTGGTAACGGCTCATTTTGTACCCATTGAAGGACAACAACGTCCTCGAACTACTATTTTGATCAAGTTTGCTGATGAGgt-taatgcctacattcatctcttttcctcatctagat-ttgtgggaaaaacttaattcttgacagttgttttact---tctatgccgcacag-

upper sequence: GLYMA18G03480.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv11s0037g00110.t01 (Vitis vinifera), 5'ss of exon 7
-GATGGTGCCGGGTTTCCAGCTGTTGTAACAGCTCATTTTGTCCCCATGGAAGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtcagtggttttgtt-tgtcatgtgtgcacatactgttagctacattctaaactgatagtttcgtttctgggtttctatcttccagg------
 ||| |||| || ||||||||||| ||||||||||| ||||| || ||||| |||||||||||||| |||||||| |||||||| |||||||||||||||||| ||      |     | || ||| |  ||  ||  |  |   || | ||    ||    | |  | |    |    ||||    || |         
GGATAGTGCAGGTTTTCCAGCTGTGGTAACAGCTCACTTTGTACCTATGGAGGGTCAACAACGACCTCGGACAACTATTTTGATTAAATTTGCTGAAGAGgtaaacatatgttatcccttttctgttacttgcacatttgatcacagatccacatgaactaaacacctccaaaccaccttttcctcttttcctttggtta

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|193390427|gb|FK356403.1|FK356403
EST:     GGTCAACAACGACCACGGACAAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: GGTCAACAACGACCACGGAC-AACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|192302735|gb|FG993755.1|FG993755
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATACTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|6725080|gb|AW309479.1|AW309479
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|254342930|gb|GR859092.1|GR859092
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|254334110|gb|GR849028.1|GR849028
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|207789578|gb|GD761710.1|GD761710
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|192304323|gb|FG996449.1|FG996449
EST:     AGGTCAACAATGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCCGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|193344577|gb|FK309999.1|FK309999
EST:     CAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: CAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|208152563|gb|GD945216.1|GD945216
EST:     ATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: ATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|207786390|gb|GD757075.1|GD757075
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGGAGAGAAGCAAGATTAGGCTGATGCTTATACCGAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|193706417|gb|FK646685.1|FK646685
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|208109845|gb|GD904413.1|GD904413
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|193490972|gb|FK455145.1|FK455145
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|21676489|gb|BQ628840.1|BQ628840
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|208055597|gb|GD849734.1|GD849734
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|151411324|gb|EV281135.1|EV281135
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|193438514|gb|FK401833.1|FK401833
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|31309603|gb|CD394806.1|CD394806
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|192302734|gb|FG993754.1|FG993754
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATACTTATACCAAGAATTTTC
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTC
EST: gi|254342931|gb|GR859093.1|GR859093
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|192297468|gb|FG992696.1|FG992696
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|193399348|gb|FK361812.1|FK361812
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTGGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|254334109|gb|GR849027.1|GR849027
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|193529524|gb|FK485275.1|FK485275
EST:     AGGTCAACAACGACCACGGACAACAATTTCGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|208066461|gb|GD863124.1|GD863124
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGGAGAGAAGCAAGATTAGGCTGATGCTTATACCGAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|193408376|gb|FK371918.1|FK371918
EST:     CAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: CAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|192323071|gb|FK017012.1|FK017012
EST:     AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA
EST: gi|192304324|gb|FG996450.1|FG996450
EST:     AGGTCAACAATGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGG                         TGTTACGAAGAGAAGCAAGATTAGGCCGATGCTTATACCAAGAATTTTCAA
genomic: AGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtca ... atcttccaggTGTTACGAAGAGAAGCAAGATTAGGCTGATGCTTATACCAAGAATTTTCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATGGTGCCGGGTTTCCAGCTGTTGTAACAGCTCATTTTGTCCCCATGGAAGGTCAACAACGACCACGGACAACAATTTTGATAAAATTTGCTGAAGAGGtatactgtcagtggttttgtttgtcatgtgtgcacatactgttagctacattctaaactgatagtttcgtttctgggtttctatcttccagg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG