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

...gttggacctggaggataaaaaatgaaaccaagtatggaactacccttttctagctttagcatcgattgatcaatcattgacattcattttatttttacagAGTTCATCTAGATCACCAAGTTCCTATTTCAAGAGAGTTCCCAAATCAAGTGCTATAAAGGTTATTGATTTTGGCAGCACCACTTATGAGCGAGAAGATC

Basic information

species Glycine max
transcript GLYMA17G13440.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G13440.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os12g27520.4 (Oryza sativa), 3'ss of exon 7
----------------------gttggacctggaggataaaaaatgaaaccaagta--tggaactacccttttctagctttagcatcgattgatcaatcattgacattcattttatttttac-agAGTTCATCTAGATCACCAA------GTTCCTATTTCAAGAGAGTTCCCAAATCAAGTGCTATAAAGGTTATTGATTTTGGCAGCACCACTTATGAGCGAGAAGATC
                       |||  | |  ||  |    || |    |   |     |   || |   || |   |  |  ||    || |   |   | |   |  |   || | | | ||  ||||||  | || ||||      ||||||||||||||    | ||||| || |||||||| ||||| ||||||||||||||||| || ||||| |         
gtatactttgttcttctacctatttgaccttttagcctttttaacgtcttctttttacccggtttagctgattatgattcaacaattttatgttatctttctaatccttctacaatctctgctagGTTTCATCCCGTTCTCCAAAGGAAGGTTCCTATTTCAAGCAGCTGCCCAAGTCCAGTGCTATTAAGGTGATTGATTTTGGCAGCACAACATATGACCAGC------

upper sequence: GLYMA17G13440.1 (Glycine max), 3'ss of exon 6
lower sequence: AT4G24740.1 (Arabidopsis thaliana), 3'ss of exon 7
gttggacctggaggataaaaaatgaaaccaagtatggaactacccttttctagctttagcatcgattgatcaatcattgacattcattttatttttacagAGTTCATCTAGATCACCAAGTTCCTATTTCAAGAGAGTTCCCAAATCAAGTGCTATAAAGGTTATTGATTTTGGCAGCACCACTTATGAGCGAGAAGATC
          |   ||    |||| |||   || ||     ||| |  | | ||       |  | || | ||  | |    ||   |||  |  | ||| | ||      |  |     |   |  |  || ||||| || ||||||||||| |||||||| ||||||||||| ||||| |||||||||||  | || |
----------gtatatctcgaatgcaactgtgtgtg-----accttaatgtggccaactatttaagtgctgaaggaatttggttgtgtttcctgatgcagGGGTCCCGATTACAAAGGGATGTATGCTATAAAAGAGTGCCTAAATCAAGTGCAATAAAGGTGATTGATTTTGGTAGCACAACTTATGAGCGCCAGGACC

upper sequence: GLYMA17G13440.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 7
-----------gttggacctggaggataaaaaatgaaaccaagtatggaactacccttttctagctttagcatcgattgatcaatcattg--acattcattt--tatttttacagAGTTCATCTAGATCACCAA------GTTCCTATTTCAAGAGAGTTCCCAAATCAAGTGCTATAAAGGTTATTGATTTTGGCAGCACCACTTATGAGCGAGAAGATC
           |||  || ||  |  ||  || ||  |    || | |   ||   || | |  ||  | |  | ||       | ||||  ||||  ||||  |   ||| |||  ||||||  | ||||| |      |||| || || |||||||| || |||||||||||||| || || ||||||||||| ||||| || |||||||||       
gtactccagatgtta-acttgatgtgtattaagtggcatatggttttgctttattattcttt--ctgcatctacaatgcccttgttattgtaacatatatttgttgcattttcagGTTTCATCCCGTTCACCCAAGGATGGTTCTTACTTTAAGAGAGTACCAAAATCAAGTGCTATTAAAGTGATTGATTTTGGAAGCACAACATATGAGCGAC------

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|208219792|gb|GE018916.1|GE018916
EST:     AAAACATACTACTAGTTTCACCAGAGTATGTCAAAGTTCCTGACTACAAG                         AGTTCATCTAGATCACCAAGTTCCTATTTCAAGAGAGTTCCCAAATCAAGT
genomic: AAAACATACTACTAGTTTCACCAGAGTATGTCAAAGTTCCTGACTACAAGgtacttttct ... atttttacagAGTTCATCTAGATCACCAAGTTCCTATTTCAAGAGAGTTCCCAAATCAAGT
EST: gi|193509579|gb|FK468373.1|FK468373
EST:     AAAACATACTAATAGTTTCACCAGAGTATGTCAAAGTTCCTGACTACAAG                         AGTTCATCTAGATCACCAAGTTCCTATT-CAAGAGAGTTCCCAAATCAAGT
genomic: AAAACATACTACTAGTTTCACCAGAGTATGTCAAAGTTCCTGACTACAAGgtacttttct ... atttttacagAGTTCATCTAGATCACCAAGTTCCTATTTCAAGAGAGTTCCCAAATCAAGT
EST: gi|193315306|gb|FK278908.1|FK278908
EST:     AAAACATACTACTAGTTTCACCAGAGTATGTCAAAGTTCCTGACTACAAG                         AGTTCATCTAAGAATAACACCAAGTTCCTATTTC
genomic: AAAACATACTACTAGTTTCACCAGAGTATGTCAAAGTTCCTGACTACAAGgtacttttct ... atttttacagAGTTCATCTA-GA-T--CACCAAGTTCCTATTTC
EST: gi|15813777|gb|BI786052.1|BI786052
EST:     AAAACATACTACTAGTTTCACCAGAGTATGTCAAAGTTCCTGACTACAAG                         AGTTCATCTAGATCACCAAGTTCCTATTTCAAGAGAGTTCCCAAATCAAGT
genomic: AAAACATACTACTAGTTTCACCAGAGTATGTCAAAGTTCCTGACTACAAGgtacttttct ... atttttacagAGTTCATCTAGATCACCAAGTTCCTATTTCAAGAGAGTTCCCAAATCAAGT
EST: gi|9986568|gb|BE660676.1|BE660676
EST:     AAAACATACTACTAGTTTCACCAGAGTATGTCAAAGTTNCTGACTACCAG                         AGTTCATCTAGATCACC
genomic: AAAACATACTACTAGTTTCACCAGAGTATGTCAAAGTTCCTGACTACAAGgtacttttct ... atttttacagAGTTCATCTAGATCACC
EST: gi|193594938|gb|FK546797.1|FK546797
EST:     AAAACATACTACTAGTTTCACCAGAGTATGTCAAAGTTCCTGACTACAAG                         AGTTCATCTAGATCACCAAGTTCCTATTTCAAGAGAGTTCCCAAATCAAGT
genomic: AAAACATACTACTAGTTTCACCAGAGTATGTCAAAGTTCCTGACTACAAGgtacttttct ... atttttacagAGTTCATCTAGATCACCAAGTTCCTATTTCAAGAGAGTTCCCAAATCAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctagctttagcatcgattgatcaatcattgacattcattttatttttacagAGTTCATCTAGATCACCAAGTTCCTATTTCAAGAGAGTTCCCAAATCAAGTGCTATAAAGGTTATTGATTTTGGCAGCACCACTTATGAGCGAGAAGATC
                             cattgac  putative branch site (score: 3)
                                     ttcattttattttt  CT-rich tract
                              attgacattcatttta  TA-rich tract