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

...ttgttgttatatttccaaaggacaaaaaaaaagatttttttttctttttcaaagattacatttgagcaatttgttaatgtaagttgactgaatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG

Basic information

species Glycine max
transcript GLYMA19G35710.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G35710.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 3
-ttgttgttatatttccaaaggacaaaaaaaaagatttttttttctttttcaaagattac-atttgagcaatttgttaatgtaagttgactgaatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG
  || ||||  ||  ||  |  |  |||  |     |   |||  | ||| | | |||    |  ||   |||    || | |    ||   | |||| |||||| ||||||| || |||||||||||||||||||||||||| |||||||   |||| || || |||
aatgatgtt-catcgcctgattaggaaaccattttatgggtttaatctttgagatattgttgtgggaatcattaaccaa-gcatacggaggcattattacagGTGGTTGAGATAGGAAAAGGGAGCAAGGTGAAATATGAACTCGACAAAACTACGGGTCTCATTAAG

upper sequence: GLYMA19G35710.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0040g02470.t01 (Vitis vinifera), 3'ss of exon 3
-ttgttgttatatttccaaaggacaaaaaaaaagatttttttttctttttcaaagattacatttgagcaatttgttaatgtaagttgactgaatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG
  |  ||  || |  | |||     | ||| ||  | ||     | ||  |        ||    ||    || ||     |  | | || | | || |||||| |||| || ||||||||||||||||||||||||||||| ||||| ||  | || || ||||||
actagtgaaatttgacaaaattttcataaataaattgttagaaaccttgccttcttaatcaaccaaggttcttatttgaacatat-gtctaatttttgcagGTGGTTGAAATAGGGAAAGGGAGCAAGGTGAAATATGAACTTGACAAGAAAACTGGACTGATCAAG
















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|10844730|gb|BF067948.1|BF067948
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|9901982|gb|BE610950.1|BE610950
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|193534902|gb|FK489066.1|FK489066
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|120534409|gb|EH262542.1|EH262542
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|193665609|gb|FK609230.1|FK609230
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAAC
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAAC
EST: gi|192301012|gb|FG990112.1|FG990112
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|22523592|gb|BU082403.1|BU082403
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|193635563|gb|FK582088.1|FK582088
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGTAAAT
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTG-AAAT
EST: gi|193314904|gb|FK281404.1|FK281404
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|193576426|gb|FK530793.1|FK530793
EST:     GACCTGGTGCTCCAATTATCTTCTAATTTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAAC
genomic: GACCTGGTGCTCCAATTATCTTC-AATT-GTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAAC
EST: gi|254335060|gb|GR844845.1|GR844845
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|298189455|gb|HO037858.1|HO037858
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACGAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|8669991|gb|BE191098.1|BE191098
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|208156025|gb|GD954529.1|GD954529
EST:     CCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: CCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|17964359|gb|BM271095.1|BM271095
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|298182727|gb|HO031462.1|HO031462
EST:     GACCTGGTGCTCCAATTATCTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
genomic: GACCTGGTGCTCCAATTATCTTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAG
EST: gi|207833133|gb|GD801810.1|GD801810
EST:     GACCTGGTGCTCCAATTTATTCTTTCAATTGT                         GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAA
genomic: GACCTGGTGCTCCAA-TTA-TC-TTCAATTGTgtaagtatgc ... aatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcaaagattacatttgagcaatttgttaatgtaagttgactgaatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG
                      aatttgttaatgtaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgttgttatatttccaaaggacaaaaaaaaagatttttttttctttttcaaagattacatttgagcaatttgttaatgtaagttgactgaatatttcagGTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAGTCGGGGCTTATCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG