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'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGGCATCTAATATAGATGGCAATGTGCGCATCAAATATAAAGATCAGTCAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaactatttttattcttaacttttaaaaggcaatgcatcatattatgcaatggagagccctgaatttcaatgcctgatttcaatctactgtggc...

Basic information

species Glycine max
transcript GLYMA04G00200.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G00200.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv00s0585g00030.t01 (Vitis vinifera), 5'ss of exon 17
AAAGGCATCTAATATAGATGGCAATGTGCGCATCAAATATAAAGATCAGTCAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaactatttttattcttaacttttaaaaggcaatgcatcatattatgcaatggagagccctgaatttcaatgc-ctgatttcaatctactgtggc-
 ||||||| ||||||||||||  ||||||| ||  |||||| ||| ||| |||||||||||   ||||| | ||| ||||| || ||| |||| ||||||||||||   ||   ||  | | ||   |||      |  |  | | ||  ||   |   | |    ||| ||     || ||   || | | |         
GAAGGCATATAATATAGATGGTGATGTGCGTATTCAATATAGAGACCAGGCAGACTTTGAACGTATTGCACGCCAGTTTGGCATTTTTGAAGAATGGAAGgtaatttctctcccttcctgcata-tatttccttttctttata-cttaaaataggaacaacatgtttgatttatggagcactccattaagtttgaaaaaaga
















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|10254009|gb|BE821775.1|BE821775
EST:     CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAG                         GATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
genomic: CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaac ... ccatttccagGATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
EST: gi|13789416|gb|BG652007.1|BG652007
EST:     CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAG                         GATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
genomic: CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaac ... ccatttccagGATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
EST: gi|17400899|gb|BM177681.1|BM177681
EST:     CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAG                         GATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
genomic: CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaac ... ccatttccagGATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
EST: gi|193349755|gb|FK316563.1|FK316563
EST:     CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAG                         GATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
genomic: CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaac ... ccatttccagGATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
EST: gi|208312954|gb|GE115076.1|GE115076
EST:     CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAG                         GATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
genomic: CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaac ... ccatttccagGATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
EST: gi|193436348|gb|FK399112.1|FK399112
EST:     CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAG                         GATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
genomic: CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaac ... ccatttccagGATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
EST: gi|207774496|gb|GD744654.1|GD744654
EST:     CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAG                         GATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
genomic: CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaac ... ccatttccagGATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
EST: gi|208310396|gb|GE103796.1|GE103796
EST:     CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAG                         GATGGTGTGCCCAGGACAGCATATAAAGG
genomic: CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaac ... ccatttccagGATGGTGTGCCCAGGACAGCATATAAAGG
EST: gi|193350538|gb|FK315400.1|FK315400
EST:     CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAG                         GATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
genomic: CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaac ... ccatttccagGATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
EST: gi|308098353|gb|HO760094.1|HO760094
EST:     CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAG                         GATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA
genomic: CAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaac ... ccatttccagGATGGTGTGCCCAGGACAGCATATAAAGGAGTAGTCGTTTTCAGATATCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGGCATCTAATATAGATGGCAATGTGCGCATCAAATATAAAGATCAGTCAGACTTTGAAAACATTGCTCACCAATTTGGTATATTTCAAGAGTGGAAGgtaattcaactatttttattcttaacttttaaaaggcaatgcatcatattatgcaatggagagccctgaatttcaatgcctgatttcaatctactgtggc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG