Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgctttcttcttttcttattcggttttgcgtctgtttttgcttcagaattttgattttgagattttgtttatttgtttttttgttattgattgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCGTTTGGCATGCTAGGGATTTTGCTGATGGTGAACTCAAGGACGAGCTCTT

Basic information

species Glycine max
transcript GLYMA10G36500.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G36500.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G07140.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgtgctttcttcttttcttattcggttttgcgtctgtttttgcttcagaattttgattttg---agattttgtttatttgtttttttgttattgat--tgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCGTTTGGCATGCTAGGGATTTTGCTGATGGTGAACTCAAGGACGAGCTCTT
   | |  |||||  ||    || |  || |||  | ||  || || || | || |  |||| |   |   |||  |||| |  | || || |  ||||  |  |||||||    |    |||||||| || || |||| |||||| || || || || || ||||| ||| | || ||||||||||||||||||||||| ||||| ||
--gtataatttctatttggactactttgtgttgtttttgagtt-gcatctggatctgtatttaggttactgtttccttatctagtcttatgcttctgatatttctgcagTTAAATCGGGCATGAGTGTTCAGGAACACGTTGGGAATGAAAAGTCATGTGTGTGGCACGCTCGTGACTTTGCTGATGGTGAACTCAAGGATGAGCTTTT
















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|254315535|gb|GR825344.1|GR825344
EST:     GATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|58015207|gb|CX701949.1|CX701949
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|10843761|gb|BF067030.1|BF067030
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|7924135|gb|AW830161.1|AW830161
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|16105079|gb|BI892819.1|BI892819
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|213598628|gb|DB964250.1|DB964250
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|254315536|gb|GR825345.1|GR825345
EST:     GATCTGCGCTAATCATCTCA                         -TTTG-CTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|254322065|gb|GR837479.1|GR837479
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|26045879|gb|CA783312.1|CA783312
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|9984280|gb|BE658388.1|BE658388
EST:     GCTTCTCATGANNNAATCCAAGACGCTCAAGANCNGCGCTAATCATCTCA                         TTTNNNNNACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|193572192|gb|FK532415.1|FK532415
EST:     GATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|58019537|gb|CX706279.1|CX706279
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|9985899|gb|BE659905.1|BE659905
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|18040952|gb|BM309246.1|BM309246
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|7042320|gb|AW472214.1|AW472214
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|254322064|gb|GR837478.1|GR837478
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|9985900|gb|BE659906.1|BE659906
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|5510355|gb|AI856680.1|AI856680
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|6567189|gb|AW234804.1|AW234804
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|9565033|gb|BE474542.1|BE474542
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|24205315|gb|BU964568.1|BU964568
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
EST: gi|192330808|gb|FK021595.1|FK021595
EST:     GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCA                         TTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG
genomic: GCTTCTCATGAGGCAATCCAAGACGCTCAAGATCTGCGCTAATCATCTCAgtatgtgctt ... attgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaattttgattttgagattttgtttatttgtttttttgttattgattgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCGTTTGGCATGCTAGGGATTTTGCTGATGGTGAACTCAAGGACGAGCTCTT
                                        tattgat  putative branch site (score: 3)
         attttgagattttgtt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtgctttcttcttttcttattcggttttgcgtctgtttttgcttcagaattttgattttgagattttgtttatttgtttttttgttattgattgttgcagTTTTGCCTACGATGAGTGTGCAAGAGCACGCTGGGAACGAGAAATCCTGCGTTTGGCATGCTAGGGATTTTGCTGATGGTGAACTCAAGGACGAGCTCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT