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

CTGTCTACTGTGTAAGTGGGAAGGATGTAGAGGGCCCGGGTGCTGATTTTGAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaattagttgactgaaattccaactactatttttgatggctactttctactttactagtcacacaataagaacattgatgcattaatgatgtcaatatattttaatttttcttggccttttgtttatag

Basic information

species Glycine max
transcript GLYMA19G42150.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G42150.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0060g02220.t01 (Vitis vinifera), 5'ss of exon 5
CTGTCTACTGTGTAAGTGGGAAGGATGTAGAGGGCCCGGGTGCTGATTTTGAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaattagttgactgaaattccaactactatttttgatggctactttctactttactagtcacacaataagaacattgatgcattaatgatgtcaatatattttaatttttcttggccttttgtttatag
|||| |||||| ||| ||| || |||| ||| || || |||   ||||||||| |||| ||||| ||||| || ||||| |||||||||||||||||||||||||| ||||| ||  | | | |||     || ||  | | ||   | | || |||||   |             |    ||  |   ||   ||||    |                                 
CTGTTTACTGTATAAATGGAAAAGATGCAGAAGGACCTGGTTGCGATTTTGAGTTTGCAGTGGTGATTTCAGCGGCTAGACATAGCCCACAGAATTTCTGgtgtgtgaaattggtcaagttacattttg--tagtaactgttat--ttgccttttacttgtttttatgtttttcttggttttttttttttttgggatgcgtgtg--------------------------------
















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|19934424|gb|BQ079454.1|BQ079454
EST:     GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTG                         CAACGGAAGTTTGTGTTCAGTATGG
genomic: GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaa ... ttgtttatagCAACGGAAGTTGGTGTTCAGTATGG
EST: gi|27425324|gb|CA936844.1|CA936844
EST:     GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTG                         CAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
genomic: GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaa ... ttgtttatagCAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
EST: gi|9819909|gb|BE555352.1|BE555352
EST:     GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTG                         CAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
genomic: GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaa ... ttgtttatagCAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
EST: gi|6502294|gb|AW203667.1|AW203667
EST:     GAGCTTGCTGTGGTAATGTCTGCTGCTAGGCATAGCCCACAGAATATCTG                         CAACGGAAGGTGGTGTTCAGTATGGGATATTGAGTTCAAAGATGAGAAACA
genomic: GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaa ... ttgtttatagCAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
EST: gi|9203355|gb|BE329641.1|BE329641
EST:     GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTG                         CAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
genomic: GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaa ... ttgtttatagCAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
EST: gi|27424501|gb|CA936021.1|CA936021
EST:     GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTG                         CAACGGAAAGT-GGTGTTCAGTATGGAAT
genomic: GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaa ... ttgtttatagCAACGGAA-GTTGGTGTTCAGTATGGAAT
EST: gi|7234639|gb|AW569975.1|AW569975
EST:     GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTG                         CAACGGAGGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
genomic: GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaa ... ttgtttatagCAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
EST: gi|192295752|gb|FG992593.1|FG992593
EST:     GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTG                         CAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGGAAAACA
genomic: GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaa ... ttgtttatagCAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
EST: gi|151412172|gb|EV281984.1|EV281984
EST:     GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTG                         CAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
genomic: GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaa ... ttgtttatagCAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
EST: gi|14516434|gb|BI095106.1|BI095106
EST:     GGCATAGCCCACAGAATTTCTG                         CAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
genomic: GGCATAGCCCACAGAATTTCTGgtgtgtaaaa ... ttgtttatagCAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
EST: gi|14258566|gb|BG881474.1|BG881474
EST:     GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATACCCCACAGAATTTCTG                         CAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA
genomic: GAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaa ... ttgtttatagCAACGGAAGTTGGTGTTCAGTATGGAATATTGAGTTCAAAGATGAAAAACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGTCTACTGTGTAAGTGGGAAGGATGTAGAGGGCCCGGGTGCTGATTTTGAGCTTGCTGTGGTAATTTCTGCTGCTAGGCATAGCCCACAGAATTTCTGgtgtgtaaaattagttgactgaaattccaactactatttttgatggctactttctactttactagtcacacaataagaacattgatgcattaatgatgtcaatatattttaatttttcttggccttttgtttatag

- - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT