Skip to another splice site:
1  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgatacatatttacctgtcacgaggaccgattagctgtgatgcattaaacccaattgttttccacattcatctcataataactgttgattgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCGTACTGGATCCAGAGGACAAGTAACCCAGGTTAGAGTGAAATTTTTGGAT

Basic information

species Glycine max
transcript GLYMA19G39250.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G39250.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g07210.t01 (Vitis vinifera), 3'ss of exon 1
gtgatacatatttacctgtcacgaggaccgattagctgtgatgcattaaacccaa--ttgttttccacattcatctcataataactgttgattgtgttt--tagCAG-----GATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCGTACTGGATCCAGAGGACAAGTAACCCAGGTTAGAGTGAAATTTTTGGAT
     |    ||| | | | |  || ||     ||     |   ||||||   ||  | ||  |    ||| ||   || |||||     ||| | |||   |||||      |||||  |   ||||||||| ||  | || || |||||||||||||| |||||||| || || || || || ||||| |||||||| |||||||  
----aatgagtttgctt-ttat-agaacttgaaaggaaaaaccaattaaatgaaaaatggtgcttagtatttatga-attataaccagcaattttctttggcagcagTGCGAAATGGATGCCGGGGTGAAGCATGCTGTGGTGGTGAAAGTTATGGGTCGAACTGGATCAAGGGGTCAGGTGACACAGGTGAGAGTGAAGTTTTTGG--

upper sequence: GLYMA19G39250.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g07210.t01 (Vitis vinifera), 3'ss of exon 4
gtgatacatatttacctgtcacgaggaccgattagctgtgatgcattaaaccc-aattgttttccacattcatct--cataataactgttgattgtgtttta-gCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCGTACTGGATCCAGAGGACAAGTAACCCAGGTTAGAGTGAAATTTTTGGAT
   |||||||||        |         | |||     |   |  |      ||||| |  ||  || |||||   ||||    | ||| |||| |     |||  ||||| |||  ||||||||| ||  | || || |||||||||||||| ||||| || ||||| || || |||||||| || ||||| |||||||  
--tatacatattctttaaatagtctatgtaactagaaagaaaatacaatcttttaattgatgcccttatgcatctattataaatgattttgtttgtttgcagTGCAAAATGGAATCTGGGGTGAAGCATGCTGTGGTGGTGAAAGTTATGGGTCGAACTGGCTCAAGAGGTCAGGTGACCCAGGTGAGGGTGAAGTTTTTGG--
















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|193718181|gb|FK652989.1|FK652989
EST:     AAGCATCCCAAAACCCTAGCTCGCGTTCTGACTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: AAGCATCCCAAAACCCTAGCTCGCGTTCTG-CTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|13481445|gb|BG510788.1|BG510788
EST:     CCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|207730894|gb|GD705135.1|GD705135
EST:     AAGCATCCCAAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: AAGCATCCC-AAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|8282924|gb|BE020485.1|BE020485
EST:     CGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|254348340|gb|GR852019.1|GR852019
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAG                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|22932959|gb|BU550098.1|BU550098
EST:     CCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|213595712|gb|DB964367.1|DB964367
EST:     CAAGCATCCCAAAACCCTAGCTTGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|193600669|gb|FK550766.1|FK550766
EST:     TCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: TCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|14991990|gb|BI317663.1|BI317663
EST:     CAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|192297048|gb|FG991999.1|FG991999
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTCCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|151408194|gb|EV278002.1|EV278002
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|7686526|gb|AW757174.1|AW757174
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|38192646|gb|CF921852.1|CF921852
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|6915266|gb|AW396796.1|AW396796
EST:     CATGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|192324641|gb|FK018737.1|FK018737
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|192315859|gb|FK008569.1|FK008569
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|254348341|gb|GR852020.1|GR852020
EST:     GCATCCC-AAA-CCTAGCTCGCGTTCTGCTTTCGTC-TTTACATCAG                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: GCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|22927955|gb|BU545094.1|BU545094
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|58018372|gb|CX705114.1|CX705114
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|8669510|gb|BE190617.1|BE190617
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAG                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|151405979|gb|EV275794.1|EV275794
EST:     CAAGCATCCCGAAA-CCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|14009188|gb|BG725783.1|BG725783
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|6070105|gb|AW099677.1|AW099677
EST:     CCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
EST: gi|208211542|gb|GE009565.1|GE009565
EST:     CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACAT---                         CAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG
genomic: CAAGCATCCCAAAACCCTAGCTCGCGTTCTGCTTTCGTCTTTTACATCAGgtgcgaaaat ... tgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaacccaattgttttccacattcatctcataataactgttgattgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCGTACTGGATCCAGAGGACAAGTAACCCAGGTTAGAGTGAAATTTTTGGAT
        aattgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgatacatatttacctgtcacgaggaccgattagctgtgatgcattaaacccaattgttttccacattcatctcataataactgttgattgtgttttagCAGGATGGAGTCTCAGGTGAAGCACGCACTTGTTGTCAAAGTTATGGGTCGTACTGGATCCAGAGGACAAGTAACCCAGGTTAGAGTGAAATTTTTGGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - -ctgtcac
- - - - - - - - - - - - - - - - - gctgtga
- - - - - - - - - - - - - - - - - - - - -tgcatta
- - - - - - - - - - - - - - - - - - - - - - - - aacccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgttg