Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTACAACAGAGTCGCCAAAGACACTCGCAAGCGCGTCGTCGGCGTCTTGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatctgatctctctctttttttctttctccaatacttagggcttgttttatttattcccttttcactttttgtttcttttctctgaaattacagt...

Basic information

species Glycine max
transcript GLYMA11G34980.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G34980.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os04g56646.1 (Oryza sativa), 5'ss of exon 1
AACTACAACAGAGTCGCCAAAGACACTCGCAAGCGCGTCGTCGGCGTCTTGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatctgatctctctctttttttctttctccaatacttagggcttgttttatttattcccttttcactttttgtttcttttctctgaaattacagt-
 |||||||| | ||||||   ||||| ||||||||||||||||||||  | |||||| |||||| |   ||  ||||||| |||||||||  |||||||||||    |     |  |       |||   | ||    |       | |  | | |  |     | | | ||  | |||    ||    |      ||   
CACTACAACCGCGTCGCCCGCGACACCCGCAAGCGCGTCGTCGGCGTGCTCCTCGGCACCTCCTCCCGCGGTTCCGTCGATGTCACCAACTCCTACGCCGgtaaaccttcccccagtactagggtttgcgtgtctcggatcagcccccttctgtttccaagggatctgcgctgctagttcgccttagg-gttcgcgcaact

upper sequence: GLYMA11G34980.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 1
AACTACAACAGAGTCGCCAAAGACACTCGCAAGCGCGTCGTCGGCGTCTTGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatctgatctctctctttt---tttctttctccaatacttagggcttgttttatttattcccttttcactttttgtttcttttctctgaaattacagt
 |||||||| | ||||||   ||||| ||||||||||||||||||||| | |||||| |||||| |   ||| |||||||||||||||||  |||||| ||||    ||  | | | | | ||    ||||| | |||  | || |||| |||      |              |   || |   || |   |   | ||   
CACTACAACCGCGTCGCCCGCGACACCCGCAAGCGCGTCGTCGGCGTCCTCCTCGGCACCTCCTCCCGCGGCTCCGTCGACGTCACCAACTCCTACGCGGgtaaacctcccaacccccgccttcctgtttctctgtccgttgct-agggtttgcgccgctccgggtaacggatatgactgctgtgttgcataggggtcacg--

upper sequence: GLYMA11G34980.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G061745_T03 (Zea mays), 5'ss of exon 1
AACTACAACAGAGTCGCCAAAGACACTCGCAAGCGCGTCGTCGGCGTCTTGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatctgatctctc---tctttttttctttctccaatacttagggcttgttttatttattcccttttcactttttgtttcttttctctgaaattacagt
 |||||||| | ||||||   ||||| ||||||||||||||||||||| | |||||| |||| | |   ||  ||||||| |||||||||  |||||||||||    ||| |  ||||    |      ||    | |  |    | |||| |  || |      |       |    |     |    | ||    | |   
CACTACAACCGCGTCGCCCGCGACACCCGCAAGCGCGTCGTCGGCGTCCTCCTCGGCACCTCATCCCGCGGGTCCGTCGATGTCACCAACTCCTACGCCGgtaaacctctcaagtctcaacccccgccctccagtttctctgtccatggctagggtt-tgcgccgctcaggtgcacgcttccggtcacgtatggggctgct--

upper sequence: GLYMA11G34980.1 (Glycine max), 5'ss of exon 1
lower sequence: AT3G11270.2 (Arabidopsis thaliana), 5'ss of exon 1
AACTACAACAGAGTCGCCAAAGACACTCGCAAGCGCGTCGTCGGCGTCTTGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatctgatctctctctttttttctttctccaatacttagggcttgtt--ttatttattcccttttcactttttgtttcttttctctgaaattacagt-
 | |||||  | || ||||| |||||  ||||||||||||||||||| ||||||||      ||     || || || |||||||||||||||||||| ||| |     |||| |  || |||  ||  |  |      ||| |  ||      |   | |     | || |  | ||| |  | |  |     | ||   | 
CATTACAATCGTGTAGCCAAGGACACGAGCAAGCGCGTCGTCGGCGTTTTGCTCGGAAGTAGCTCTCGTGGTACTGTTGACGTCACCAACAGCTACGCAGgtgc---cttgattttactttttcctttctctttgttctcttcgatctcacagatctctgaaagtttgttaagctcttgctaatctcataattcaatatgttt

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|208037245|gb|GD835258.1|GD835258
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGA
EST: gi|254323156|gb|GR835764.1|GR835764
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|193560878|gb|FK521109.1|FK521109
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAA
EST: gi|6071648|gb|AW101035.1|AW101035
EST:     TCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: TCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|193636909|gb|FK579858.1|FK579858
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|207781762|gb|GD754439.1|GD754439
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|193408977|gb|FK371609.1|FK371609
EST:     CCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATTCCTAGCATCTGGTTTCTTGACCAC
genomic: CCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGA-TCCTAGCATCTGGTTTCTTGACCAC
EST: gi|208317923|gb|GE116676.1|GE116676
EST:     GTCACCAACAGCTTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
genomic: GTCACCAACAGC-TACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCAC
EST: gi|193546151|gb|FK503112.1|FK503112
EST:     GCTCGGCTCCTCCCTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTG
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTG
EST: gi|193382151|gb|FK346216.1|FK346216
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCA                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|6718815|gb|AW306462.1|AW306462
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|208079786|gb|GD873748.1|GD873748
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTAGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|24136280|gb|BU926790.1|BU926790
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|208205725|gb|GE006136.1|GE006136
EST:     CGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: CGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|193355670|gb|FK322971.1|FK322971
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTAGAAACC
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTT-GA--CC
EST: gi|207840530|gb|GD812655.1|GD812655
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATAACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|207712765|gb|GD693389.1|GD693389
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGA
EST: gi|193341755|gb|FK307569.1|FK307569
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGAACCAC
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGA-CCAC
EST: gi|193645638|gb|FK588282.1|FK588282
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|193532136|gb|FK489338.1|FK489338
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|298172443|gb|HO019483.1|HO019483
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|207824956|gb|GD797172.1|GD797172
EST:     CACCGTCGACGTCNCCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: CACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
EST: gi|151411180|gb|EV280991.1|EV280991
EST:     GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCG                         TGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA
genomic: GCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatct ... taattgacagTGCCCTTTGAAGAAGATGACAAGGATCCTAGCATCTGGTTTCTTGACCACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACTACAACAGAGTCGCCAAAGACACTCGCAAGCGCGTCGTCGGCGTCTTGCTCGGCTCCTCCTTCAAAGGCACCGTCGACGTCACCAACAGCTACGCCGgtacggatctgatctctctctttttttctttctccaatacttagggcttgttttatttattcccttttcactttttgtttcttttctctgaaattacagt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctttctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccttttc