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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTAGTTTGAGTGCATTCGCGTTCTTGTTCTCGGAGCTTGTTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcctcttaaacctcttttattattcgttgccttctcaaattaagagaaacgctgattttggttttaaattgggagatcatatgataataagtag...

Basic information

species Glycine max
transcript GLYMA18G03480.1
intron # 3
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 3
lower sequence: LOC_Os01g51220.1 (Oryza sativa), 5'ss of exon 2
GTTAGTTTGAGTGCATTCGCGTTCTTGTTCTCGGAGCTTGTTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcctcttaaacctcttttattattcgttgccttctcaaattaagagaaacgctgatttt--ggttttaaattgggagatcatatgataataagtag-
|| |||||||||||||| |||||| ||||||| ||| | ||||| |||||||| || ||||| || |||||||  ||||| ||| ||||||  |  |     |     |    ||| |||  ||  |    ||| | || |  || | | ||| |   |    ||||  | |  |  | || | ||       
GTCAGTTTGAGTGCATTTGCGTTCCTGTTCTCAGAGTTGGTTCAATACAACCAGACACAGGTTGATAACATTGCTGAGCTGGAAAGAAGgtagtagtttatattg---tgagatatcatttcttttcaaaacaa-tgaacatcaaagtttattgtatagacaaaaatatgcaattggtttgtttatgttctat

upper sequence: GLYMA18G03480.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G439457_T01 (Zea mays), 5'ss of exon 3
GTTAGTTTGAGTGCATTCGCGTTCTTGTTCTCGGAGCTTGTTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcctcttaaacctcttttattattcgttgccttctcaaattaagagaaacgctgatt--ttggttttaaattgggagatcatatgataataagtag
|| |||||||||||||| || ||||||||||| ||| | |||||||||||||| || || || |||||||||   ||||| ||||| |||| | | |  | |  |    ||||| | ||   |||  |  |  |||    |   | | |||||  ||  |||  |    |    |    | ||  |      
GTCAGTTTGAGTGCATTTGCATTCTTGTTCTCTGAGTTGGTTCAGTACAACCAGACTCAAGTTGACAACATTACTGAGCTGGAACGGAGgtaactctattgtgtatatacttttctgatc--ttgtttgat-gaatctgtattgaggttgattgattattttctaccatgtccctttgtttattttgcccta

upper sequence: GLYMA18G03480.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G58030.1 (Arabidopsis thaliana), 5'ss of exon 2
GTTAGTTTGAGTGCATTCGCGTTCTTGTTCTCGGAGCTTGTTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGtta-----ttatcctcttaaacct-cttttattattcgttgccttctcaaattaagagaaacgctgattttggttttaaattgggagatcatatgataataagtag
|| || ||||  ||||| || ||||| ||||||||||| ||||||||||| ||||| ||||| ||||| || |  || || ||| |||||| |     ||    ||||| |  | | | |  | ||  ||   |  || |||| |   | |  |     ||     |   ||      |  |||||| |     ||
GTGAGCTTGACCGCATTTGCTTTCTTATTCTCGGAGCTCGTTCAGTACAATCAAACCCAGGTTGACAATATAGCTGAACTTGAAAGAAGgtgagctgattggattcttagaaatacatatgatttttttttattagtctaattcatttacattccatccttaacaatgtgttttc---ttttatgatgactctcag

upper sequence: GLYMA18G03480.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv11s0037g00110.t01 (Vitis vinifera), 5'ss of exon 2
GTTAGTTTGAGTGCATTCGCGTTCTTGTTCTCGGAGCTTGTTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcctcttaaacctcttttattattcgttgccttctcaaattaagagaaacgctgattttggttttaaattgggagatcatatgataataagtag-----
|| |||||||||||||| || |||||||| ||||||||||| |||||||| ||| | |||||||| |||||||  ||  | ||| ||||||  |    |   |  |  |  ||||| ||    ||  |       ||     | || |  ||  |   |  ||||  |    || | | ||  ||  |       
GTGAGTTTGAGTGCATTTGCTTTCTTGTTTTCGGAGCTTGTCCAGTACAATCAAGCACAGGTCGATAACATTGCTGAATTGGAAAGAAGgtagtggatcatcttcatgttgtttataatcttctgattct----gtttcatcacacacatatcctaaatgcaaat--gattttcttttcattttacatctgcata

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|298197159|gb|HO041902.1|HO041902
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|192302735|gb|FG993755.1|FG993755
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|5606114|gb|AI900212.1|AI900212
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTT-GGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|193662323|gb|FK603923.1|FK603923
EST:     CTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: CTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|254342930|gb|GR859092.1|GR859092
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|254334110|gb|GR849028.1|GR849028
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|192304323|gb|FG996449.1|FG996449
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|298194561|gb|HO043033.1|HO043033
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|193403751|gb|FK365693.1|FK365693
EST:     GGCGGGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: GGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|21676489|gb|BQ628840.1|BQ628840
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|151411324|gb|EV281135.1|EV281135
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|192302734|gb|FG993754.1|FG993754
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|254342931|gb|GR859093.1|GR859093
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|192297468|gb|FG992696.1|FG992696
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|51334757|gb|CO978623.1|CO978623
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|193607147|gb|FK557424.1|FK557424
EST:     GGCGGGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: GGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|254334109|gb|GR849027.1|GR849027
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|298178531|gb|HO024266.1|HO024266
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|298163034|gb|HO011767.1|HO011767
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|208178433|gb|GD977014.1|GD977014
EST:     GCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: GCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|298176675|gb|HO026796.1|HO026796
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATACGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|6567248|gb|AW234859.1|AW234859
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|192323071|gb|FK017012.1|FK017012
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|192304324|gb|FG996450.1|FG996450
EST:     TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: TTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
EST: gi|193430306|gb|FK397270.1|FK397270
EST:     AGGTCGACAACATTGGCGAGCTCGAACGAAGA                         CTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC
genomic: AGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcct ... atccaccagaCTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTAGTTTGAGTGCATTCGCGTTCTTGTTCTCGGAGCTTGTTCAGTACAACCAAACGCAGGTCGACAACATTGGCGAGCTCGAACGAAGGttattatcctcttaaacctcttttattattcgttgccttctcaaattaagagaaacgctgattttggttttaaattgggagatcatatgataataagtag

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