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'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGAAAAGGCCAAGTATTACTACATTTCTGGCTTTTTCCTCACTGTATCTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatgatttgaacttggcattcctgttttactggcagtttttgagattaagtattctatttctgtatgcag

Basic information

species Glycine max
transcript GLYMA10G06580.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G06580.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os04g43750.1 (Oryza sativa), 5'ss of exon 8
TTGAAAAGGCCAAGTATTACTACATTTCTGGCTTTTTCCTCACTGTATCTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatgatttgaacttggcattcctgttttactggcagtttttgagattaagtattctatttctgtatgcag
|||| ||||| || |||   |||||| |||||||||||||||| ||||| || |||||||| ||| | |||||||| ||||| ||||||| ||||||||| | |||  | ||  |||            ||| || ||| | ||  ||  ||| |  |  |   || | |||||
TTGAGAAGGCAAAATATATTTACATTGCTGGCTTTTTCCTCACGGTATCCCCGGATTCCATTCAACTTGTTGCTGAGCATGCTGCTGCAACTAACAAGgtaaaatactaatt--actaaaaggagaatattttctagcattgttacagtataaatgattaaa--ctatttgcag

upper sequence: GLYMA10G06580.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G135132_T01 (Zea mays), 5'ss of exon 8
TTGAAAAGGCCAAGTATTACTACATTTCTGGCTTTTTCCTCACTGTATCTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatgatttgaacttggcattcctgttttactggcagtttttg--agattaagtattctatttctgtatgcag
|||| ||||| || ||   ||||||| |||| ||||||||||| || || |||||||| || || || |||||||| ||||| || |||||||||||||| | ||      | |  |    || || |||  | | |  ||||| |   |||| |  |||||||||          
TTGAGAAGGCAAAATACATCTACATTGCTGGATTTTTCCTCACGGTGTCACCTGATTCTATCCAGTTAGTTGCTGAGCATGCTGCGGCAAATAACAAGgt-aaattcataataatatgaaaatgccagttgaagttgttgttttagtttgattgaccattctattttcag------

upper sequence: GLYMA10G06580.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv13s0019g04470.t01 (Vitis vinifera), 5'ss of exon 8
TTGAAAAGGCCAAGTATTACTACATTTCTGGCTTTTTCCTCACTGTATCTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatat---gatttgaacttggcattcctgttttact-ggcagtttttgagattaagtattc--tatttctgtatgcag------
||||||||||||| |||| ||| ||| |||| |||||||| ||||| || ||||| || || | | | || |||||||||||||||||||| || ||||| |    |    | |   | |   |     ||||||  |    || || ||  |   | | | |  |||||    || ||       
TTGAAAAGGCCAAATATTTCTATATTGCTGGTTTTTTCCTGACTGTGTCCCCTGAATCAATTCTACTCGTAGCTGAACATGCAGCTGCAAACAATAAGgtaattcttttcaagtcagattcatcgcagttgttttcttcaatagcttctgcaacccaatgtccattattttctcattcacgtgcag

upper sequence: GLYMA10G06580.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv13s0019g04480.t01 (Vitis vinifera), 5'ss of exon 8
TTGAAAAGGCCAAGTATTACTACATTTCTGGCTTTTTCCTCACTGTATCTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttaga---tatgatttgaacttggcattcctgttttact-ggcagtttttgagattaagtattc--tatttctgtatgcag------
||||||||||||| |||| ||| ||| |||| |||||||| ||||| || ||||| || || | | | || |||||||||||||||||||| || ||||| |     | | | |   | |   |     ||||||  |    || || ||  |   | | | |  ||| |    || ||       
TTGAAAAGGCCAAATATTTCTATATTGCTGGTTTTTTCCTGACTGTGTCCCCTGAATCAATTCTACTCGTAGCTGAACATGCAGCTGCAAACAATAAGgtaattctttttaagtcagattcatcgcagttgttttcttcaatagcttctgcaacccaatgtccattatcttctcattcatgtgcag

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|58024551|gb|CX711292.1|CX711292
EST:     CCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAG                         ATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
genomic: CCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatg ... ctgtatgcagATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
EST: gi|6454402|gb|AW185085.1|AW185085
EST:     CTCCTGATTCCATACAATTGGGTGCTGAACATGCAGCTGCAAATAACCAG                         ATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAA
genomic: CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatg ... ctgtatgcagATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAA
EST: gi|298169113|gb|HO020473.1|HO020473
EST:     CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAG                         ATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
genomic: CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatg ... ctgtatgcagATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
EST: gi|12689938|gb|BG156274.1|BG156274
EST:     CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAG                         ATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
genomic: CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatg ... ctgtatgcagATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
EST: gi|193336544|gb|FK299032.1|FK299032
EST:     CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAG                         ATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
genomic: CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatg ... ctgtatgcagATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
EST: gi|12690012|gb|BG156348.1|BG156348
EST:     CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAG                         ATCTTCATGATGAACCTNTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
genomic: CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatg ... ctgtatgcagATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
EST: gi|151394548|gb|EV264419.1|EV264419
EST:     CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAG                         ATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAAGGG
genomic: CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatg ... ctgtatgcagATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAA-GGG
EST: gi|5606299|gb|AI900405.1|AI900405
EST:     TCCTGANTCCATACCATTGGTTGCTNGA-CATGCAGCTGCACATAACAAG                         ATCTTCATGATGAACCTATCTGCTCCCTTTATATGTGAG
genomic: TCCTGATTCCATACAATTGGTTGCT-GAACATGCAGCTGCAAATAACAAGgttagatatg ... ctgtatgcagATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAG
EST: gi|120531830|gb|EH259963.1|EH259963
EST:     CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAG                         ATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
genomic: CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatg ... ctgtatgcagATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
EST: gi|16348521|gb|BI974116.1|BI974116
EST:     CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAG                         ATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT
genomic: CTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatg ... ctgtatgcagATCTTCATGATGAACCTTTCTGCTCCCTTTATATGTGAGTTCTTTAAGGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGAAAAGGCCAAGTATTACTACATTTCTGGCTTTTTCCTCACTGTATCTCCTGATTCCATACAATTGGTTGCTGAACATGCAGCTGCAAATAACAAGgttagatatgatttgaacttggcattcctgttttactggcagtttttgagattaagtattctatttctgtatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC