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

TGGCTGTTTGATTGAACTTATGAAATTTGATATGGGCGGTTCTGCTGCAGTTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatttatatcattgctcactacttttcattttattgtttcacattttctgttatcttgctaactttcaaagtaatgttaaaagcctctgcttgg...

Basic information

species Glycine max
transcript GLYMA19G22730.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G22730.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv11s0037g00180.t01 (Vitis vinifera), 5'ss of exon 5
TGGCTGTTTGATTGAACTTATGAAATTTGATATGGGCGGTTCTGCTGCAGTTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatttat-atcattgct-----cactactt-ttcatttta--ttgtttcacattttctgttatcttgctaactttcaaagta-atgttaaaagcctctgc--ttgg--------------------------------------------
||||||||  ||||| || ||||| ||||||||||| ||||| ||||| ||| | || |||||||||||  | ||||| || ||||||  ||||||||||||  | || || |  |  ||| |     || |  || ||  |||||  |||  |   |   | | ||| ||     | ||  |   |  || || ||  |  | ||  |||                                             
TGGCTGTTCTATTGAGCTCATGAAGTTTGATATGGGGGGTTCAGCTGCGGTTCTCGGTGCAGCAAAAGCCATTGGTCAAATTAAACCTTCTGGAGTGGAGgtaagccagttgttgttgttgttgttatcattgtttgtttgttttaacttgcatggaacaatttcttaactaatccatttgtatgttctattttcaattctccagcaattgaatctagcatacacttatgacttattaagggtcttgtatttgcag
















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|151398506|gb|EV268377.1|EV268377
EST:     AAACCTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: AAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
EST: gi|254323478|gb|GR835924.1|GR835924
EST:     TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
EST: gi|254323479|gb|GR835925.1|GR835925
EST:     TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
EST: gi|192311508|gb|FK005239.1|FK005239
EST:     TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
EST: gi|16278041|gb|BI942695.1|BI942695
EST:     TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
EST: gi|208264998|gb|GE065326.1|GE065326
EST:     TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
EST: gi|8282655|gb|BE020216.1|BE020216
EST:     TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
EST: gi|192311498|gb|FK005229.1|FK005229
EST:     TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
EST: gi|254317061|gb|GR826006.1|GR826006
EST:     -TTTT-GAGCAGCAAAAGCTCTAGGTCAGATCAAA-CTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
EST: gi|192311499|gb|FK005230.1|FK005230
EST:     TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
EST: gi|209724515|gb|BW658374.1|BW658374
EST:     -TTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
EST: gi|192311507|gb|FK005238.1|FK005238
EST:     TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAG                         GTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG
genomic: TTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatt ... gcatgtgcagGTTCATTTTATAGTTGCAGCTTGTGAGAATATGATAAGTGGAACAGGTATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGCTGTTTGATTGAACTTATGAAATTTGATATGGGCGGTTCTGCTGCAGTTTTTGGAGCAGCAAAAGCTCTAGGTCAGATCAAACCTCTTGGAGTGGAGgtctgtcatttatatcattgctcactacttttcattttattgtttcacattttctgttatcttgctaactttcaaagtaatgttaaaagcctctgcttgg

- - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG