Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCACTTGGACCAAAGCTATACCATTTGGAGATTGCTTTGGGGCATTATAAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAAggtatgttctagatgagcctacccattcaacatcatataatttttcttgtactttaaggcacttttttcaaatctagaattgtgtgcgggaggctacttt...

Basic information

species Glycine max
transcript GLYMA18G04510.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G04510.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0006g00630.t01 (Vitis vinifera), 5'ss of exon 5
TATCACTTGGACCAAAGCTATACCATTTGGAGATTGCTTTGGGGCATTATAAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAAggtatgtt--ctagatgagcctacccattcaacatcatataatttttcttgtactttaaggcacttttttcaaatctag-aattgtgtgcgggaggctacttt
  || ||||||||||| ||||||||| | |||||||||||||||||||| ||||| ||||| || || ||||| ||| ||| | |||||||||| ||||||||||||   | ||   | | ||     |   |||| |    | |   |  ||  || ||   | | |   |||| |   || |||||     |    |    
-GTCTCTTGGACCAAAACTATACCATCTAGAGATTGCTTTGGGGCATTACAAGAAGTGGACGGTTCCAGATTCTCTTCCCTTTGTGAAGTCTTACATGAAGgtatgtctacaagccaaacatattagatgttcatcttgctgtatgagtactatatttagcagcatatggaaaatatctcaactgtgttgaatatagaaaa--
















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|207842240|gb|GD817596.1|GD817596
EST:     AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAA                         GGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAGGA
genomic: AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAAggtatgttct ... tgaacgtacaGGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAGGA
EST: gi|14011388|gb|BG726302.1|BG726302
EST:     AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAA                         GGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAGGA
genomic: AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAAggtatgttct ... tgaacgtacaGGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAGGA
EST: gi|192322908|gb|FK014839.1|FK014839
EST:     AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAA                         AGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAG-A
genomic: AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAAggtatgttct ... tgaacgtacaGGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAGGA
EST: gi|151410703|gb|EV280518.1|EV280518
EST:     AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAA                         GGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTG
genomic: AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAAggtatgttct ... tgaacgtacaGGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTG
EST: gi|15285864|gb|BI469755.1|BI469755
EST:     GCCTGATTCACTTACCTCTTTGAAGTCTTATATGAA                         GGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAGGA
genomic: GCCTGATTCACTTACCTCTTTGAAGTCTTATATGAAggtatgttct ... tgaacgtacaGGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAGGA
EST: gi|117557695|gb|EG702080.1|EG702080
EST:     AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAA                         GGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAGGA
genomic: AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAAggtatgttct ... tgaacgtacaGGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAGGA
EST: gi|151395906|gb|EV265783.1|EV265783
EST:     AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAA                         GGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACC
genomic: AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAAggtatgttct ... tgaacgtacaGGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACC
EST: gi|193625274|gb|FK575176.1|FK575176
EST:     AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAA                         GGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAGGA
genomic: AAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAAggtatgttct ... tgaacgtacaGGCCATTTTCTCGAGGGAATCGTTCGTTAAAACAAGTGCACAACCACAGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATCACTTGGACCAAAGCTATACCATTTGGAGATTGCTTTGGGGCATTATAAGAAATGGACAGTGCCTGATTCACTTACCTCTTTGAAGTCTTATATGAAggtatgttctagatgagcctacccattcaacatcatataatttttcttgtactttaaggcacttttttcaaatctagaattgtgtgcgggaggctacttt

- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctaccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgcggg