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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTAGTTTGAGCGCATTCGCGTTCTTGTTCTCGGAGCTTGTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattattatccactgcattctgaaattaagagaagcgctgatttggttttgttttagtttctccttaggtttggaattgggagatcatctgataataa...

Basic information

species Glycine max
transcript GLYMA11G34840.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G34840.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G439457_T01 (Zea mays), 5'ss of exon 3
GTTAGTTTGAGCGCATTCGCGTTCTTGTTCTCGGAGCTTGTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattat----tatccactgcattctgaaattaagagaagcg-ctgatttggttttgttttagtttctccttaggtttggaattgggagatcatctgataataa
|| |||||||| ||||| || ||||||||||| ||| | |||||||||||||| || || || ||||| |||   ||||| ||||| |||| | | |    | |  |     ||||||  ||    || |   |||  |||   ||| || | | | | ||    | |    |||     | || |     || 
GTCAGTTTGAGTGCATTTGCATTCTTGTTCTCTGAGTTGGTTCAGTACAACCAGACTCAAGTTGACAACATTACTGAGCTGGAACGGAGgtaactctattgtgtatatacttttctgatcttgtttgatgaatctgtattgaggttgattgattattttctaccatgtccctttgt----ttattttgcccta-

upper sequence: GLYMA11G34840.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G58030.1 (Arabidopsis thaliana), 5'ss of exon 2
GTTAGTTTGAGCGCATTCGCGTTCTTGTTCTCGGAGCTTGTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattattatccactgcattctgaaattaagagaagcgctgatttggtt---ttgttttagtttctccttaggtttggaattgggagatcatctgataataa-------
|| || |||| |||||| || ||||| ||||||||||| ||||||||||| ||||| ||||| |||||||| |  || |||||| |||||| |         | || ||||| | |   | | | |   |  |||  ||    |  || | || |     |   ||   | || |   || | | || || |       
GTGAGCTTGACCGCATTTGCTTTCTTATTCTCGGAGCTCGTTCAGTACAATCAAACCCAGGTTGACAATATAGCTGAACTTGAAAGAAGgtga-----gctgattggattcttagaaatacatatgatttttttttattagtctaattcatttacattccatccttaacaatgtgttttc-ttttatgatgactctcag

upper sequence: GLYMA11G34840.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv11s0037g00110.t01 (Vitis vinifera), 5'ss of exon 2
GTTAGTTTGAGCGCATTCGCGTTCTTGTTCTCGGAGCTTGTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattattatccactgcattctgaaattaagagaagcgctgatttggttttgttttagtttctccttaggtttgga--attgggagatcatctgataataa----
|| |||||||| ||||| || |||||||| ||||||||||| |||||||| ||| | |||||||| || ||||  ||  | ||| ||||||  |    |||  || |||  ||   || | | |    ||||||  ||||  |   |       | ||  |    |  |||      |||| | | |        
GTGAGTTTGAGTGCATTTGCTTTCTTGTTTTCGGAGCTTGTCCAGTACAATCAAGCACAGGTCGATAACATTGCTGAATTGGAAAGAAGgtagtgg--atcatcttcatgttg---tttata-atcttctgattctgtttcatcacacacatatcctaaatgcaaatgattttcttttcattttacatctgcata

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|151411948|gb|EV281759.1|EV281759
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|207751764|gb|GD723645.1|GD723645
EST:     GGCGGGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|208278600|gb|GE077931.1|GE077931
EST:     GGCGGGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|208041585|gb|GD840389.1|GD840389
EST:     GGCGGGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|207831834|gb|GD802070.1|GD802070
EST:     GGCGGGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAG
genomic: GGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAG
EST: gi|151396616|gb|EV266493.1|EV266493
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|151410774|gb|EV280589.1|EV280589
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTCGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|192320522|gb|FK011932.1|FK011932
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|208134278|gb|GD931371.1|GD931371
EST:     GGCGGGCTTGGACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|298191865|gb|HO035947.1|HO035947
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|208256579|gb|GE057408.1|GE057408
EST:     GGCGGGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|208210375|gb|GE002770.1|GE002770
EST:     CTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: CTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|13477866|gb|BG507568.1|BG507568
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|207702593|gb|GD685673.1|GD685673
EST:     GGCGGGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|151405191|gb|EV275005.1|EV275005
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|208221539|gb|GE018619.1|GE018619
EST:     GGCGGGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|8286428|gb|BE023996.1|BE023996
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|192320523|gb|FK011933.1|FK011933
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|151412057|gb|EV281869.1|EV281869
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTCGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|42723157|gb|CK769056.1|CK769056
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|193492237|gb|FK455263.1|FK455263
EST:     GGCGGGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|9987096|gb|BE661204.1|BE661204
EST:     GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
EST: gi|208134214|gb|GD927919.1|GD927919
EST:     GGCGGGCTTGAACGAAG                         ACTGGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTT
genomic: GGCGAGCTTGAACGAAGgttattatta ... catcccccagACT-GGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTT
EST: gi|193330318|gb|FK294896.1|FK294896
EST:     GGCGGGCTTGAACGAAG                         ACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG
genomic: GGCGAGCTTGAACGAAGgttattatta ... catcccccagACTGGAGGATGCTGGATATGCGGTTGGGGCTCGAGTTCTTGAGCTGCTTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTAGTTTGAGCGCATTCGCGTTCTTGTTCTCGGAGCTTGTTCAGTACAACCAAACGCAGGTCGACAATATTGGCGAGCTTGAACGAAGgttattattatccactgcattctgaaattaagagaagcgctgatttggttttgttttagtttctccttaggtttggaattgggagatcatctgataataa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT